BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 010835
(499 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>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 = 825 bits (2130), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 411/508 (80%), Positives = 450/508 (88%), Gaps = 10/508 (1%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGLSAGKRLLSS+FYYSD++EK S N+ G + Q+ STK ++ AKKSSNY PS
Sbjct: 1 MATAAVIGLSAGKRLLSSTFYYSDLTEKLSSANEHGLTHYQITSTKTLIVAKKSSNYGPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFA-STAEPWAEPPNSIEEESSELDYSVEALLLLQKSMLE 120
FPSSNR TQ IKALKEHVDT A STA + N +EEESS+LDYSVEALLLLQKSMLE
Sbjct: 61 FPSSNRNTQSIKALKEHVDTASAPSTAATQFKTFNDMEEESSDLDYSVEALLLLQKSMLE 120
Query: 121 KQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQL 180
KQWNLSFERT +DSPS+K+ KK+PVTCSGVSARQRR+N ++K LSQ+K +Q N KQL
Sbjct: 121 KQWNLSFERTDSSDSPSRKSQKKIPVTCSGVSARQRRINIRRKNLSQSKFTVQANVFKQL 180
Query: 181 RSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---- 236
+S +SPEL+QNRLKGYVKGVVSEELL+HAEVVRLS+ IK GLSL+DHK RLKERLG
Sbjct: 181 KSAVSPELLQNRLKGYVKGVVSEELLSHAEVVRLSRIIKAGLSLEDHKSRLKERLGCDPS 240
Query: 237 -----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
+SL+ISR ELQS + CSLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGGLI
Sbjct: 241 DEQVATSLKISRAELQSKSIACSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLI 300
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK+RL
Sbjct: 301 GLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKIRL 360
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
EEKGVTPS+DRIAE LN+SQKKVRNATEA+ KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 361 EEKGVTPSIDRIAESLNISQKKVRNATEAVSKVFSLDREAFPSLNGLPGETHHSYIADNC 420
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRER 471
+ENNPWHGVDDWALKDEVNKLI +TL ERE+EIIRLYYGLD E LTWEDISKRIGLSRER
Sbjct: 421 LENNPWHGVDDWALKDEVNKLINLTLQEREQEIIRLYYGLDNESLTWEDISKRIGLSRER 480
Query: 472 VRQVGLVALEKLKHAARKKKMEAMLVKH 499
VRQVGLVALEKLKHAARKKK+EAMLVKH
Sbjct: 481 VRQVGLVALEKLKHAARKKKLEAMLVKH 508
>gi|224146103|ref|XP_002325882.1| predicted protein [Populus trichocarpa]
gi|222862757|gb|EEF00264.1| predicted protein [Populus trichocarpa]
Length = 509
Score = 799 bits (2064), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 397/509 (77%), Positives = 442/509 (86%), Gaps = 10/509 (1%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
MMATAAVIGLS+GKRLLSSSFYYSD++EK S +ND G +TKNV+ AKKSSNY P
Sbjct: 1 MMATAAVIGLSSGKRLLSSSFYYSDLTEKLSNVNDHGITYYPTATTKNVIVAKKSSNYGP 60
Query: 61 SFPSSNRQTQPIKALKEHVDTNFAST-AEPWAEPPNSIEEESSELDYSVEALLLLQKSML 119
SFPSSNR + IKALKEHVDT AS+ W + + EEESS LDYSVEALLLLQKSML
Sbjct: 61 SFPSSNRNSHSIKALKEHVDTASASSNVATWFKTFDDFEEESSALDYSVEALLLLQKSML 120
Query: 120 EKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQ 179
EKQWNLSFERT +DS SKK +KK+PVTCSGVSARQRR+N+++K +Q+K + Q + K
Sbjct: 121 EKQWNLSFERTNSSDSTSKKNNKKIPVTCSGVSARQRRVNNRRKNQNQSKFMSQSSDFKF 180
Query: 180 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-- 237
LRS+ SP+L+QNRLKGYVKGVVS+E+L H EVVRLS+ I+ GLS +DHK RLKERLG
Sbjct: 181 LRSVSSPDLLQNRLKGYVKGVVSDEVLPHTEVVRLSRIIRAGLSFEDHKSRLKERLGCEP 240
Query: 238 -------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
SLRISR +LQS L++CSLAREKL MSNVRLVMSIAQ+YDNMGA+MADLVQGGL
Sbjct: 241 SDEQIADSLRISRADLQSKLIQCSLAREKLAMSNVRLVMSIAQKYDNMGAEMADLVQGGL 300
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 350
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV+NSRTLRLPNHLHERLGLIRNAK+R
Sbjct: 301 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVDNSRTLRLPNHLHERLGLIRNAKIR 360
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
LEEKGVTPS+DRIAE LNMSQ+KVRNATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 361 LEEKGVTPSIDRIAESLNMSQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 420
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 470
R ENNPWHGVD+WALK+EVNKLI TL ERE+EIIRLY+GLD+ECLTWEDISKR+GLSRE
Sbjct: 421 RPENNPWHGVDEWALKEEVNKLIDSTLQEREKEIIRLYHGLDQECLTWEDISKRMGLSRE 480
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLVKH 499
RVRQVGLVALEKLKHAARK+ EAMLVKH
Sbjct: 481 RVRQVGLVALEKLKHAARKRNTEAMLVKH 509
>gi|356543070|ref|XP_003539986.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 503
Score = 772 bits (1993), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/510 (75%), Positives = 444/510 (87%), Gaps = 19/510 (3%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGLS GKRLLSSS++YSDI EK SY +D GS + Q+ TK+++ AKKSSNY P+
Sbjct: 1 MATAAVIGLSGGKRLLSSSYHYSDIIEKLSYGSDFGSTHYQIVPTKSLIVAKKSSNYTPT 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNS--IEEESSELDYSVEALLLLQKSML 119
FP+SN+Q Q IKALKEHVD + + A+PW + NS +E ESSE+ YSVEALLLLQKSML
Sbjct: 61 FPASNQQNQSIKALKEHVD-DAPTIADPWFQSYNSNDLEVESSEMGYSVEALLLLQKSML 119
Query: 120 EKQWNLSFERTVLTDSPSK-KTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSK 178
EKQWNLSFER VLT++ SK K +KV VTCSGVSARQRR+N+K+K + ++ G+
Sbjct: 120 EKQWNLSFEREVLTENSSKGKKCRKVAVTCSGVSARQRRMNTKRK------TAIKTCGAM 173
Query: 179 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-- 236
QL+S ISPEL+Q+RLKGYVKG+VSEELL+HAEVV LS+KIK GLSL++HK RLKE+LG
Sbjct: 174 QLKSKISPELLQHRLKGYVKGLVSEELLSHAEVVNLSEKIKVGLSLEEHKSRLKEKLGCE 233
Query: 237 -------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 289
+SL+ISR EL++ ++ECSLAREKL MSNVRLVMSIAQ+YDN+GA+M DLVQGG
Sbjct: 234 PSDDQMATSLKISRTELRARMIECSLAREKLAMSNVRLVMSIAQKYDNLGAEMGDLVQGG 293
Query: 290 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 349
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK
Sbjct: 294 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPAHLHERLSLIRNAKF 353
Query: 350 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 409
RLEE+G+TP++DRIA+YLNMSQKKVRNATEAI K+ SLDREAFPSLNGL GETHHSYIAD
Sbjct: 354 RLEERGITPTIDRIAKYLNMSQKKVRNATEAISKIISLDREAFPSLNGLQGETHHSYIAD 413
Query: 410 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 469
NRVEN PW+GVD+WALKDEVN+LI VTL EREREIIRLYYGL+KECLTWEDISKRIGLSR
Sbjct: 414 NRVENIPWNGVDEWALKDEVNRLINVTLVEREREIIRLYYGLEKECLTWEDISKRIGLSR 473
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ERVRQVGLVALEKLKHAARK++MEAML+KH
Sbjct: 474 ERVRQVGLVALEKLKHAARKRQMEAMLLKH 503
>gi|356531599|ref|XP_003534364.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 503
Score = 765 bits (1976), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 384/510 (75%), Positives = 440/510 (86%), Gaps = 19/510 (3%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGLS GKRLLSSS++YSD+ EK SY +D GS + Q+ TK+++AAKKSSNY P+
Sbjct: 1 MATAAVIGLSGGKRLLSSSYHYSDVIEKLSYGSDFGSTHYQIVPTKSLIAAKKSSNYTPT 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNS--IEEESSELDYSVEALLLLQKSML 119
FP+SN+Q Q IKALKEHVD + + A+ W + NS +E ESSE+ YSVEALLLLQKSML
Sbjct: 61 FPASNQQNQSIKALKEHVD-DAPTIADSWFQSCNSNDLEVESSEMGYSVEALLLLQKSML 119
Query: 120 EKQWNLSFERTVLTDSPSK-KTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSK 178
EKQWNLSFER VLT+ SK K KKV VTCSGVSARQRR+N+K+K + ++ G+
Sbjct: 120 EKQWNLSFEREVLTEHSSKGKKCKKVAVTCSGVSARQRRMNTKRK------TAIKTCGAM 173
Query: 179 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS- 237
QL+S ISPEL+Q+RLKGYVKG+VSEELL+HAEVV LS++IK GLSL++HK RLKERLG
Sbjct: 174 QLKSKISPELLQHRLKGYVKGIVSEELLSHAEVVNLSERIKVGLSLEEHKSRLKERLGCE 233
Query: 238 --------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 289
SL+ISR EL++ ++EC+LAREKL MSNVRLVMSIAQ+YDN+GA+M DLVQGG
Sbjct: 234 PSDDQMAISLKISRTELRARMIECTLAREKLAMSNVRLVMSIAQKYDNLGAEMGDLVQGG 293
Query: 290 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 349
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK
Sbjct: 294 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPAHLHERLSLIRNAKF 353
Query: 350 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 409
RLEE+G+TP++DRIA+YLNMSQKKVRNATEAI K SLDREAFPSLNG+ GETHHSYIAD
Sbjct: 354 RLEERGITPTIDRIAKYLNMSQKKVRNATEAISKTISLDREAFPSLNGIQGETHHSYIAD 413
Query: 410 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 469
+RVEN PW+GVD+WALKDEVNKLI VTL EREREIIRLYYGLDKE LTWEDISKRIGLSR
Sbjct: 414 DRVENIPWNGVDEWALKDEVNKLINVTLVEREREIIRLYYGLDKEGLTWEDISKRIGLSR 473
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ERVRQVGLVALEKLKHAARK++MEAML+KH
Sbjct: 474 ERVRQVGLVALEKLKHAARKRQMEAMLLKH 503
>gi|449468291|ref|XP_004151855.1| PREDICTED: RNA polymerase sigma factor sigA-like [Cucumis sativus]
gi|449514942|ref|XP_004164521.1| PREDICTED: RNA polymerase sigma factor sigA-like [Cucumis sativus]
Length = 508
Score = 764 bits (1974), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 382/509 (75%), Positives = 437/509 (85%), Gaps = 11/509 (2%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
MMATAA+IGL A KRLL+SS YYSD +EK Y ND +QV S+K+VV AK S+N++P
Sbjct: 1 MMATAAIIGLGAAKRLLNSSSYYSDFTEKILYANDYRLGQTQVSSSKSVVIAKSSANFSP 60
Query: 61 SFPSSNRQTQP-IKALKEHVDTNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQKSML 119
+PSSNR +Q IKA+KEHV+T + AEPW S E+E +EL Y+VEALLLLQKSML
Sbjct: 61 RYPSSNRHSQQCIKAVKEHVETPSSPIAEPWHNT-TSWEDEETELKYTVEALLLLQKSML 119
Query: 120 EKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQ 179
EKQW+LSFE+TV TD+P +KT KKVPVTCSGVSARQRR++SK+KI S++ + Q SKQ
Sbjct: 120 EKQWSLSFEQTVSTDTPKEKTLKKVPVTCSGVSARQRRMSSKRKIQSKHVFMAQPKISKQ 179
Query: 180 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-- 237
LR ISPEL+QNRLKGYVKG++SEELL+HAEVVRLSKKIK GL+L++ K RLK+RLG
Sbjct: 180 LRPTISPELLQNRLKGYVKGLLSEELLSHAEVVRLSKKIKVGLTLEERKTRLKQRLGCEP 239
Query: 238 -------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
SL+ISR EL+S +ME SLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGGL
Sbjct: 240 SEDQLAISLKISRAELRSRMMESSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGL 299
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 350
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERLGLIRNAK++
Sbjct: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLGLIRNAKVK 359
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
L+EKG+TPS+DRIAE LNMS+KKV+NATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 360 LQEKGITPSLDRIAESLNMSKKKVQNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 419
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 470
+ENNPWHG D W LK EVN+LI +TLG+REREIIRLY+GLD ECLTWE+ISKRIGLSRE
Sbjct: 420 CLENNPWHGTDTWILKVEVNQLINMTLGDREREIIRLYHGLDNECLTWEEISKRIGLSRE 479
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLVKH 499
RVRQVGLVALEKLK AA+ +KMEAML+KH
Sbjct: 480 RVRQVGLVALEKLKKAAKTRKMEAMLLKH 508
>gi|224124068|ref|XP_002319237.1| predicted protein [Populus trichocarpa]
gi|222857613|gb|EEE95160.1| predicted protein [Populus trichocarpa]
Length = 499
Score = 743 bits (1919), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 386/509 (75%), Positives = 427/509 (83%), Gaps = 20/509 (3%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
MMATA+ IGL+ GKRLLSSSFY+SD++EK S +ND G A+ Q+ +TK+V+ AKKSS Y P
Sbjct: 1 MMATASFIGLTTGKRLLSSSFYFSDLTEKLSNVNDHGVAHYQITTTKSVIVAKKSSKYGP 60
Query: 61 SFPSSNRQTQPIKALKEHVDTNFAS-TAEPWAEPPNSIEEESSELDYSVEALLLLQKSML 119
SFPSS R KALKE +DT AS T W + + EEESS LDYSVEAL+LLQKSML
Sbjct: 61 SFPSSYRNPHSNKALKELIDTASASSTVATWFKTLDDFEEESSVLDYSVEALILLQKSML 120
Query: 120 EKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQ 179
EKQWNLSFE +DS KK++KK+PVTCSGVSARQRRLN+K+K QN SK
Sbjct: 121 EKQWNLSFESINSSDSKIKKSNKKIPVTCSGVSARQRRLNNKRK---------NQNQSK- 170
Query: 180 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-- 237
S ISP L+ NRLKGYVKGVVS+E+L H EVVRLS+ I+ GLSL+DHK LKERLG
Sbjct: 171 FMSDISPGLLLNRLKGYVKGVVSDEVLPHTEVVRLSRIIRAGLSLEDHKSSLKERLGCEP 230
Query: 238 -------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
SLRISR +LQS L++CSLAREKL MSNVRLVMSIAQ+ DNMGA+MADLVQ GL
Sbjct: 231 SDEQLADSLRISRADLQSQLIQCSLAREKLAMSNVRLVMSIAQKNDNMGAEMADLVQAGL 290
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 350
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN RTLRLPNHLHERLGLIRNAK+R
Sbjct: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENPRTLRLPNHLHERLGLIRNAKIR 350
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
LEEKGVTPS+DRIAE LNMSQ+KVRNATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 351 LEEKGVTPSIDRIAESLNMSQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 410
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 470
R+ENNPWHGVD+WALK+EVNKLI L EREREIIRLY+GLDKECLTWEDISKR+GLSRE
Sbjct: 411 RLENNPWHGVDEWALKEEVNKLIDSALQEREREIIRLYHGLDKECLTWEDISKRMGLSRE 470
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLVKH 499
RVRQVGLVALEKLKHAARK K+EAMLVKH
Sbjct: 471 RVRQVGLVALEKLKHAARKGKLEAMLVKH 499
>gi|2565297|gb|AAB81958.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana]
Length = 502
Score = 729 bits (1881), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 371/519 (71%), Positives = 426/519 (82%), Gaps = 38/519 (7%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYRPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+HAEVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHAEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
RLK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 341 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 460
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|15217767|ref|NP_176666.1| sigma factor A [Arabidopsis thaliana]
gi|75098242|sp|O24629.1|SIGA_ARATH RecName: Full=RNA polymerase sigma factor sigA; Short=Sigma factor
A; Short=Sigma-A; AltName: Full=RNA polymerase sigma
factor sig1; Short=Atsig1; Short=Sigma factor 1;
AltName: Full=RNA polymerase sigma factor sig2;
Short=Atsig2; Short=Sigma factor 2; AltName: Full=RNA
polymerase sigma factor sigB; Short=Sigma factor B;
Short=Sigma-B; Flags: Precursor
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 = 728 bits (1878), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 370/519 (71%), Positives = 426/519 (82%), Gaps = 38/519 (7%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
RLK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 341 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 460
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|11762220|gb|AAG40388.1|AF325036_1 At1g64860 [Arabidopsis thaliana]
Length = 502
Score = 725 bits (1872), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 369/519 (71%), Positives = 426/519 (82%), Gaps = 38/519 (7%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
RLK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRY+N+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYNNLGA 283
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 341 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 460
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|2398851|dbj|BAA22214.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana]
Length = 502
Score = 724 bits (1870), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 369/519 (71%), Positives = 425/519 (81%), Gaps = 38/519 (7%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SAR RR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARPRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
RLK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 341 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 460
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|2385344|emb|CAA74896.1| sigma factorB [Arabidopsis thaliana]
Length = 500
Score = 723 bits (1867), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 368/517 (71%), Positives = 424/517 (82%), Gaps = 38/517 (7%)
Query: 4 TAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPSFP 63
TAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PSFP
Sbjct: 1 TAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPSFP 60
Query: 64 SSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLLLQ 115
SSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LLLQ
Sbjct: 61 SSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILLLQ 116
Query: 116 KSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNKSI 171
KSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K++
Sbjct: 117 KSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVKAV 176
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
+ KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK RL
Sbjct: 177 SDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKSRL 223
Query: 232 KERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 282
K+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA+M
Sbjct: 224 KDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAEM 283
Query: 283 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 342
+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERLG
Sbjct: 284 SDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERLG 343
Query: 343 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 402
LIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPGET
Sbjct: 344 LIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPGET 403
Query: 403 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDIS 462
HHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWEDIS
Sbjct: 404 HHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWEDIS 463
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
KRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 KRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 500
>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 = 719 bits (1857), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 375/518 (72%), Positives = 428/518 (82%), Gaps = 35/518 (6%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKK--SSNYN 59
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK SSNY+
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASSSNYS 60
Query: 60 PSFPSSNRQTQPIKALKEHVDTNFASTAEPWAE--PPNSIEEESSELD---YSVEALLLL 114
PSFPSSNR TQ KALKE VD AST +PW +EEE + D +SVEALLLL
Sbjct: 61 PSFPSSNRHTQSAKALKESVDV--ASTEKPWIHNGTDKELEEEGYDDDLIGHSVEALLLL 118
Query: 115 QKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNKS 170
QKSMLEK WNLSFE+ ++S SK+T KK+PV TCSG+SARQRR+ +KKK ++ K+
Sbjct: 119 QKSMLEKSWNLSFEKAASSESSSKRTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVKA 178
Query: 171 ILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR 230
+ + KQ+R GYVKGV+SE++L+HAEVVRLSKKIK+GL LDDHK R
Sbjct: 179 VSDVSSGKQVR-------------GYVKGVISEDVLSHAEVVRLSKKIKSGLRLDDHKSR 225
Query: 231 LKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 281
LK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA+
Sbjct: 226 LKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAE 285
Query: 282 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 341
M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERL
Sbjct: 286 MSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERL 345
Query: 342 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 401
GLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ K+FSLDR+AFPSLNGLPGE
Sbjct: 346 GLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKIFSLDRDAFPSLNGLPGE 405
Query: 402 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 461
THHSYIADNRVENNPWHG DD ALK+EV+KLI TLGEREREIIRLYYGLDKECLTWEDI
Sbjct: 406 THHSYIADNRVENNPWHGYDDLALKEEVSKLISATLGEREREIIRLYYGLDKECLTWEDI 465
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
SKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 466 SKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 503
>gi|6682869|dbj|BAA88921.1| sigma factor [Nicotiana tabacum]
Length = 508
Score = 698 bits (1802), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 360/509 (70%), Positives = 418/509 (82%), Gaps = 11/509 (2%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
MM+TAAVIGLSAGKRLLSSSFYYSD++EK + +D V S KNV+ AKKSS+Y+P
Sbjct: 1 MMSTAAVIGLSAGKRLLSSSFYYSDLNEKLTCTSDHSLPCHHVPSIKNVITAKKSSDYSP 60
Query: 61 SFPSSNRQTQPIKALKEHVDTNFASTAEP-WAEPPNSIEEESSELDYSVEALLLLQKSML 119
S SS R++Q K+LKEHVD + P W E ++ ES + D SVE LLLLQKSML
Sbjct: 61 SCVSS-RKSQSAKSLKEHVDITADPSDVPSWFEMYEQLQNESDDEDESVEVLLLLQKSML 119
Query: 120 EKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQ 179
EKQWNLS E+T+ +K KK+ +TCSG SAR+RR++S++++L ++ S + +K
Sbjct: 120 EKQWNLSLEQTLTASPQHEKKSKKMHITCSGTSARRRRMDSRQRVLDRHSSATPTSAAKP 179
Query: 180 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-- 237
LRS+I PEL+QNRLKGYVKGVVSEELLTHAEV++LSKKI+ GL L++ K RLKERLG
Sbjct: 180 LRSIIGPELLQNRLKGYVKGVVSEELLTHAEVLQLSKKIQVGLYLEEQKSRLKERLGCEP 239
Query: 238 -------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
SL++SR +LQS L+ECSLARE+L MSNVRLVMSIAQRYDN+GA+MADLVQGGL
Sbjct: 240 SDDQLAVSLKMSRTDLQSTLIECSLARERLAMSNVRLVMSIAQRYDNVGAEMADLVQGGL 299
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 350
IGLLRGIEKFD SKG+KISTYVYWWIRQGVSRALVENSRTLRLP +LHERL LIRNAK R
Sbjct: 300 IGLLRGIEKFDPSKGYKISTYVYWWIRQGVSRALVENSRTLRLPTYLHERLSLIRNAKAR 359
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
LEEKG+TPSV+ IA LNMSQKKVRNATEA K++SLDREAFPSLNGLPGET HSYIADN
Sbjct: 360 LEEKGITPSVNNIAASLNMSQKKVRNATEASSKMYSLDREAFPSLNGLPGETLHSYIADN 419
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 470
+ENNPWHGVD WALKDEVN LI TL +REREIIRLYYGLD ECLTWEDISKRIGLSRE
Sbjct: 420 HLENNPWHGVDVWALKDEVNNLISSTLRDREREIIRLYYGLDNECLTWEDISKRIGLSRE 479
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLVKH 499
RVRQVGLVALEKLKHAARK++++AML+K
Sbjct: 480 RVRQVGLVALEKLKHAARKRQLDAMLIKQ 508
>gi|359489968|ref|XP_002264964.2| PREDICTED: RNA polymerase sigma-B factor-like isoform 2 [Vitis
vinifera]
Length = 497
Score = 697 bits (1799), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 368/513 (71%), Positives = 416/513 (81%), Gaps = 30/513 (5%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFS-YINDLGSANSQVGSTKNVVAAKKSSNYN 59
MM TAAVIGLSAG RLL+SS +YSD++EK S Y+ND+G + KN+++AKK SNY
Sbjct: 1 MMGTAAVIGLSAGNRLLASSHHYSDVAEKLSSYVNDVGFPHHPSPPPKNLISAKKPSNYT 60
Query: 60 PSFPSSNRQTQPIKALKEHVDTNFA-STAEPWAEPPNSIEEESSELDYSVEALLLLQKSM 118
PS SNR Q +KALKEHV++ A STA+P +S E + +Y VEA LLLQKSM
Sbjct: 61 PS---SNRSIQSMKALKEHVESASAPSTADP---DLSSSSSEVEDEEYLVEAFLLLQKSM 114
Query: 119 LEKQWNLSFERTVLT---DSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQN 175
LEKQWNLSFE D K K+ VTCSG SARQRR++ +K+++++
Sbjct: 115 LEKQWNLSFEEEEEEEEEDMGKKARQKRREVTCSGTSARQRRISGRKRVMNEK------- 167
Query: 176 GSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL 235
++R+ + ++NRLKGYVKGVVSEELLTHA+VV LS KIK GL L+DHK RLKER+
Sbjct: 168 SKSRVRAALG---VENRLKGYVKGVVSEELLTHAQVVLLSNKIKAGLLLEDHKSRLKERI 224
Query: 236 GS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
GS SLR+SR ELQS L+ECSLAREKL MSNVRLVMSIAQRYDNMGA+MADLV
Sbjct: 225 GSEPTDEQVAASLRMSRAELQSKLIECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLV 284
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 346
QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP+HLHERL LIRN
Sbjct: 285 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPSHLHERLSLIRN 344
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
AK+RLEEKG+TPS+DRIAE LNMSQKKVRNATEAI KVFSLDREAFPSLNGLPGET HSY
Sbjct: 345 AKIRLEEKGITPSIDRIAECLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSY 404
Query: 407 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 466
IAD R+ENNPWHGVD+WALKDEVNKLI TLGERER+IIRLYYGLD ECLTWEDISKRIG
Sbjct: 405 IADVRLENNPWHGVDEWALKDEVNKLINTTLGERERDIIRLYYGLDNECLTWEDISKRIG 464
Query: 467 LSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
LSRERVRQVGLVALEKLK+AARK +MEAMLVK+
Sbjct: 465 LSRERVRQVGLVALEKLKNAARKGRMEAMLVKY 497
>gi|2706544|emb|CAA75859.1| Sig1 [Sinapis alba]
Length = 481
Score = 697 bits (1798), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 364/513 (70%), Positives = 416/513 (81%), Gaps = 47/513 (9%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MAT AVIGL+AGKRLLSSSFYYSD++EKF +NDL S+ T++ + AKK+S+ + S
Sbjct: 1 MATTAVIGLNAGKRLLSSSFYYSDVTEKFLSVNDLCSSQYH---TRSGITAKKTSSSSSS 57
Query: 62 FPSSN-----RQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQK 116
S + RQTQ KALKE V AS+ +PW P + E E ++D+SVEALLLLQ+
Sbjct: 58 NYSPSFPSSSRQTQSAKALKESV----ASSVQPWLPPGSDQELEEDDIDHSVEALLLLQR 113
Query: 117 SMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNG 176
SMLEKQWNLSFE KT KKVPVTCSG+SARQRR+ +KKK + K++ + N
Sbjct: 114 SMLEKQWNLSFE----------KTRKKVPVTCSGISARQRRIGAKKK--TNVKAVSEVN- 160
Query: 177 SKQLRSMISPELIQNRL-KGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL 235
QN L KGYVKGV+S+ +L+HAEVVRLSKKIK+GL LD+HK RL +RL
Sbjct: 161 ------------FQNNLVKGYVKGVISDHVLSHAEVVRLSKKIKSGLRLDEHKSRLTDRL 208
Query: 236 GS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
G SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDNMGA+M+DLV
Sbjct: 209 GCEPSDEQLAMSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNMGAEMSDLV 268
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 346
QGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERLGLIRN
Sbjct: 269 QGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERLGLIRN 328
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
AKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ K+FSLDR+AFPSLNGLPGETHHSY
Sbjct: 329 AKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSY 388
Query: 407 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 466
IADNR+ENNPWHG D ALKDEV+KLI VTLGEREREIIRLYYGLDKECLTWEDIS+RIG
Sbjct: 389 IADNRLENNPWHGYDALALKDEVSKLISVTLGEREREIIRLYYGLDKECLTWEDISQRIG 448
Query: 467 LSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
LSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 449 LSRERVRQVGLVALEKLKHAARKRKMEAMILKN 481
>gi|297737220|emb|CBI26421.3| unnamed protein product [Vitis vinifera]
Length = 555
Score = 696 bits (1797), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 366/510 (71%), Positives = 414/510 (81%), Gaps = 37/510 (7%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFS-YINDLGSANSQVGSTKNVVAAKKSSNYN 59
MM TAAVIGLSAG RLL+SS +YSD++EK S Y+ND+G + KN+++AKK SNY
Sbjct: 72 MMGTAAVIGLSAGNRLLASSHHYSDVAEKLSSYVNDVGFPHHPSPPPKNLISAKKPSNYT 131
Query: 60 PSFPSSNRQTQPIKALKEHVDTNFA-STAEPWAEPPNSIEEESSELDYSVEALLLLQKSM 118
PS SNR Q +KALKEHV++ A STA+P +S E + +Y VEA LLLQKSM
Sbjct: 132 PS---SNRSIQSMKALKEHVESASAPSTADP---DLSSSSSEVEDEEYLVEAFLLLQKSM 185
Query: 119 LEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSK 178
LEKQWNLSF K K+ VTCSG SARQRR++ +K+++++
Sbjct: 186 LEKQWNLSF----------KARQKRREVTCSGTSARQRRISGRKRVMNEK-------SKS 228
Query: 179 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS- 237
++R+ + ++NRLKGYVKGVVSEELLTHA+VV LS KIK GL L+DHK RLKER+GS
Sbjct: 229 RVRAALG---VENRLKGYVKGVVSEELLTHAQVVLLSNKIKAGLLLEDHKSRLKERIGSE 285
Query: 238 --------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 289
SLR+SR ELQS L+ECSLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGG
Sbjct: 286 PTDEQVAASLRMSRAELQSKLIECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGG 345
Query: 290 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 349
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP+HLHERL LIRNAK+
Sbjct: 346 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPSHLHERLSLIRNAKI 405
Query: 350 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 409
RLEEKG+TPS+DRIAE LNMSQKKVRNATEAI KVFSLDREAFPSLNGLPGET HSYIAD
Sbjct: 406 RLEEKGITPSIDRIAECLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSYIAD 465
Query: 410 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 469
R+ENNPWHGVD+WALKDEVNKLI TLGERER+IIRLYYGLD ECLTWEDISKRIGLSR
Sbjct: 466 VRLENNPWHGVDEWALKDEVNKLINTTLGERERDIIRLYYGLDNECLTWEDISKRIGLSR 525
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 499
ERVRQVGLVALEKLK+AARK +MEAMLVK+
Sbjct: 526 ERVRQVGLVALEKLKNAARKGRMEAMLVKY 555
>gi|334183639|ref|NP_001185314.1| sigma factor A [Arabidopsis thaliana]
gi|332196178|gb|AEE34299.1| sigma factor A [Arabidopsis thaliana]
Length = 498
Score = 667 bits (1722), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 340/485 (70%), Positives = 392/485 (80%), Gaps = 38/485 (7%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVD--VASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
RLK+RLG SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 341 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 460
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 461 ISKRI 465
ISKRI
Sbjct: 464 ISKRI 468
>gi|6682871|dbj|BAA88922.1| sigma factor [Nicotiana tabacum]
Length = 502
Score = 667 bits (1721), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 347/505 (68%), Positives = 406/505 (80%), Gaps = 16/505 (3%)
Query: 6 AVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPSFPSS 65
A+IGLSAG R+LSSSFYYS ++EKF ++D S KNV+ AK SSNY+PS+ S
Sbjct: 3 AIIGLSAGNRILSSSFYYSVLTEKFC-VSDHALPCHHFPSPKNVINAKNSSNYSPSY-VS 60
Query: 66 NRQTQPIKALKEHVD--TNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQKSMLEKQW 123
NR+ Q +KALKEHVD +N S EPW + ++ S + SVE LLLLQKSMLEKQW
Sbjct: 61 NRKKQSVKALKEHVDIASNRDSDTEPWVQMFKQLQNGSCSEEDSVEVLLLLQKSMLEKQW 120
Query: 124 NLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSM 183
NLS E+ + ++ KK K+ +TCSG SAR+RR++++K+ L S + SK+LRS+
Sbjct: 121 NLSAEKAMTNENNCKK---KMQITCSGTSARRRRMDTRKRDLLPKNSATSDSSSKRLRSV 177
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS------ 237
I PEL+QNR KGY+ GVV +ELLTH EVV+LSKKIK GL L++ K RLKERLG
Sbjct: 178 IGPELLQNRSKGYINGVVGQELLTHTEVVQLSKKIKFGLYLEEQKSRLKERLGCEPSDDQ 237
Query: 238 ---SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 294
SL+ISR +L+S L+ECSLAREKL MSNVRLVMSIAQRYD G +MADL+QGGLIGLL
Sbjct: 238 LAISLKISRADLRSTLIECSLAREKLAMSNVRLVMSIAQRYDTNGTEMADLIQGGLIGLL 297
Query: 295 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 354
RGIEKFD S+GFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK++L+E
Sbjct: 298 RGIEKFDHSRGFKISTYVYWWIRQGVSRALVENSRTLRLPIHLHERLSLIRNAKIKLKEN 357
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 414
G+TPS+++IAE LNMSQKKVRNATEA KVFSLDREAFPSLNGLPGET HSYIADNR+EN
Sbjct: 358 GITPSIEKIAECLNMSQKKVRNATEASSKVFSLDREAFPSLNGLPGETLHSYIADNRLEN 417
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 474
PWHGVD+W LKDEVN LI TL EREREI+RLYYGLD ECLTWEDIS+RIGLSRERVRQ
Sbjct: 418 IPWHGVDEWMLKDEVNNLISSTLREREREIVRLYYGLDNECLTWEDISRRIGLSRERVRQ 477
Query: 475 VGLVALEKLKHAARKKKMEAMLVKH 499
VGLVALEKLKHAARK++++AMLVKH
Sbjct: 478 VGLVALEKLKHAARKRRLDAMLVKH 502
>gi|297608012|ref|NP_001061065.2| Os08g0163400 [Oryza sativa Japonica Group]
gi|255678168|dbj|BAF22979.2| Os08g0163400 [Oryza sativa Japonica Group]
Length = 520
Score = 477 bits (1228), Expect = e-132, Method: Compositional matrix adjust.
Identities = 271/526 (51%), Positives = 357/526 (67%), Gaps = 39/526 (7%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDI-SEKFSYINDLGSANSQVGSTKNVVAAKKSSNYN 59
M AT AVIGLSAG RLLS+SF +D+ +K S G G + ++ +
Sbjct: 1 MTATPAVIGLSAGNRLLSASFGPTDLMPDKVSLGVGGGGGGGGGGGGGDAMSFAPPAPAT 60
Query: 60 PSFP---------SSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEE-----ESSELD 105
P S + + Q ++AL+ H A P PP + + +L+
Sbjct: 61 PKLTAVAAHRLKLSPHGRAQVMRALRHHSSAAAALAPPPPPPPPPTPSPASRAAHAHDLE 120
Query: 106 YSVEALLLLQKSMLEKQWNLSFE------RTVLTDSPSKKTHKKVPVTCSGVSARQRRLN 159
S+EA++LLQ+SMLEKQW L F+ L + + V V S VSARQRR++
Sbjct: 121 SSLEAIVLLQRSMLEKQWELPFDDDNHAMAIGLAEDDDDTSKATVVVARSSVSARQRRMS 180
Query: 160 SKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIK 219
+++ ++N G+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK
Sbjct: 181 GRRRGRTKN-------GAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIK 231
Query: 220 TGLSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMS 270
G+ L + +LKE+LG+ SL+IS PEL+S + E LARE L MSN+RLV+S
Sbjct: 232 DGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVIS 291
Query: 271 IAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRT 330
IAQ+YDN+G ++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T
Sbjct: 292 IAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKT 351
Query: 331 LRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE 390
RLP +LHERL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++
Sbjct: 352 FRLPTYLHERLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQ 411
Query: 391 AFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 450
AFPSLNGLPGET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G
Sbjct: 412 AFPSLNGLPGETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHG 471
Query: 451 LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ K+C TWEDIS++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 472 IGKQCHTWEDISRQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 517
>gi|2780746|dbj|BAA24364.1| plastid RNA polymerase sigma factor [Oryza sativa Japonica Group]
Length = 519
Score = 476 bits (1225), Expect = e-131, Method: Compositional matrix adjust.
Identities = 272/529 (51%), Positives = 359/529 (67%), Gaps = 46/529 (8%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDI-SEKFSYINDLGSANSQVGSTKNVVAAKKSSNYN 59
M AT AVIGLSAG RLLS+SF +D+ +K S G G + ++ +
Sbjct: 1 MTATPAVIGLSAGNRLLSASFGPTDLMPDKVSLGVGGGGGGGGGGGGGDAMSFAAA---- 56
Query: 60 PSFP------------SSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEE-----ESS 102
P+ P S + + Q ++AL+ H A P PP + +
Sbjct: 57 PATPKLTAVAAHRLKLSPHGRAQVMRALRHHSSAAAALAPPPPPPPPPTPSPASRAAHAH 116
Query: 103 ELDYSVEALLLLQKSMLEKQWNLSFE------RTVLTDSPSKKTHKKVPVTCSGVSARQR 156
+L+ S+EA++LLQ+SMLEKQW L F+ L + + V V S VSARQR
Sbjct: 117 DLESSLEAIVLLQRSMLEKQWELPFDDDNHAMAIGLAEDDDDTSKATVVVARSSVSARQR 176
Query: 157 RLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSK 216
R++ +++ ++N G+ +SPELIQ+R + Y++G VS+ELLTH +VV LS
Sbjct: 177 RMSGRRRGRTKN-------GAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSH 227
Query: 217 KIKTGLSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRL 267
KIK G+ L + +LKE+LG+ SL+IS PEL+S + E LARE L MSN+RL
Sbjct: 228 KIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRL 287
Query: 268 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 327
V+SIAQ+YDN+G ++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL EN
Sbjct: 288 VISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAEN 347
Query: 328 SRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 387
S+T RLP +LHERL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SL
Sbjct: 348 SKTFRLPTYLHERLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSL 407
Query: 388 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRL 447
D++AFPSLNGLPGET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRL
Sbjct: 408 DQQAFPSLNGLPGETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRL 467
Query: 448 YYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
Y+G+ K+C TWEDIS++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 468 YHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 516
>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 = 470 bits (1209), Expect = e-130, Method: Compositional matrix adjust.
Identities = 269/515 (52%), Positives = 358/515 (69%), Gaps = 37/515 (7%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
M AT A+IGLSAGKRLL++SF +D++ ++ S + K V A ++S +
Sbjct: 1 MTATPAMIGLSAGKRLLATSFGNTDLAPPDAH----PSLQFAPAAPKLTVVAHRASASSS 56
Query: 61 SF---PSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSI-------EEESSELDYSVEA 110
S P+ + + I+AL+ H A PP + E EL+ S+EA
Sbjct: 57 SSSSSPAGHARAHAIRALRNHSAPALAPPLPLPLPPPPAADPAPELDSEFEFELESSLEA 116
Query: 111 LLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKS 170
++LLQ+SMLEKQW L FE D + T V V SGVSARQRR++ +++ KS
Sbjct: 117 IVLLQRSMLEKQWQLPFEDEDEDDE--RLTKAAVVVARSGVSARQRRMSGRRRG-PGRKS 173
Query: 171 ILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR 230
+ +SPEL+Q+R + Y++G VS++LLTH +V++LS+KIK G+ L + +
Sbjct: 174 V-----------TVSPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSK 222
Query: 231 LKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 281
LKE+LG+ SL IS PEL++ + E LARE L MSN+RLV+SIAQ+YDN+G +
Sbjct: 223 LKEKLGNEPSYKQLAQSLHISPPELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVE 282
Query: 282 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 341
+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+ RLP +LHERL
Sbjct: 283 LADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKAFRLPTYLHERL 342
Query: 342 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 401
IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+
Sbjct: 343 IAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVNKVLSLDQQAFPSLNGLPGD 402
Query: 402 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 461
T HSYI D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+ K+C TWEDI
Sbjct: 403 TLHSYIEDQNVANDPWHGFEERYLKEEVNNLINSTLNERERDIIRLYHGIGKQCHTWEDI 462
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
S++ GLSRERVRQVGLVA+EKLKHAAR+K ++A+L
Sbjct: 463 SRQFGLSRERVRQVGLVAMEKLKHAARRKHLDALL 497
>gi|194699556|gb|ACF83862.1| unknown [Zea mays]
gi|223944677|gb|ACN26422.1| unknown [Zea mays]
gi|413917282|gb|AFW57214.1| RNA polymerase sigma factor 1 isoform 1 [Zea mays]
gi|413917283|gb|AFW57215.1| RNA polymerase sigma factor 1 isoform 2 [Zea mays]
gi|413917284|gb|AFW57216.1| RNA polymerase sigma factor 1 isoform 3 [Zea mays]
Length = 496
Score = 468 bits (1205), Expect = e-129, Method: Compositional matrix adjust.
Identities = 267/510 (52%), Positives = 356/510 (69%), Gaps = 31/510 (6%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYIN-DLGSANSQVGSTKNVVAAKKSSNYN 59
M AT AVIGLSAG RLL++SF ++++ +Y + +A ++ + +A SS N
Sbjct: 1 MTATPAVIGLSAGNRLLATSFGSAELASPDAYPSRQFAAAAPKLTVVAHRASASASSPAN 60
Query: 60 PSFPSSNRQTQPIKALKEH--VDTNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQKS 117
R I+AL+ H A+P E + E ESS +EA++LLQ+S
Sbjct: 61 IGGAGHAR-AHAIRALRNHSAPALAPPPPADPAPELDSKFEFESS-----LEAIVLLQRS 114
Query: 118 MLEKQWNLSFERTVL-TDSPSKKTHKKVPVTCSGVSARQRRLNSKKK-ILSQNKSILQQN 175
MLEKQW L FE + T+ + V V SGVSARQRR++ +++ + KS+
Sbjct: 115 MLEKQWELPFEDDISSTEDEDEDERSTVVVARSGVSARQRRMSGRRRGAVVGRKSV---- 170
Query: 176 GSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL 235
+SPEL+Q+R + Y++G VS++LLTH +VV+LS+KIK G+ L + +LKE+L
Sbjct: 171 -------TVSPELMQSRNRIYLRGTVSKDLLTHKQVVQLSRKIKDGIWLQHQRSKLKEKL 223
Query: 236 GS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
G+ SLRI PEL++ + E LARE L MSN RLV+SIAQ+YDN+G ++ DL+
Sbjct: 224 GNEPSYKQLAQSLRIPAPELRARMRESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLI 283
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 346
QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSR+ RLP +LHERL IR
Sbjct: 284 QGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRSFRLPTYLHERLVAIRG 343
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+T HSY
Sbjct: 344 AKYALEDQGIAPTVENIAESLNISEKKVHNATEAVHKVISLDQQAFPSLNGLPGDTLHSY 403
Query: 407 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 466
I D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+ K+C TWEDIS++ G
Sbjct: 404 IEDQNVANDPWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGIGKQCHTWEDISRQFG 463
Query: 467 LSRERVRQVGLVALEKLKHAARKKKMEAML 496
LSRERVRQVGLVA+EKLKHAAR++ ++A+L
Sbjct: 464 LSRERVRQVGLVAMEKLKHAARREHLDALL 493
>gi|326512474|dbj|BAJ99592.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 468 bits (1204), Expect = e-129, Method: Compositional matrix adjust.
Identities = 264/522 (50%), Positives = 342/522 (65%), Gaps = 45/522 (8%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGS--ANSQVGSTKNVVAAKKSSNY 58
M AT ++IGLSAG RLLS+SF NDL S NS + S S +
Sbjct: 1 MTATPSLIGLSAGNRLLSTSF---------GPPNDLLSDKVNSHMTSAAGDAHGSSSLQF 51
Query: 59 NPSFPSSNRQTQPIKALK--EHVDTNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQK 116
P P++++ T LK H A P ++ ++S++A++LLQ+
Sbjct: 52 AP--PAASKLTVAAHRLKLSPHGRAQVMRALRQSALAPQPPPLLLAD-EFSLDAIILLQR 108
Query: 117 SMLEKQWNLSFERTVLTDSP-------------SKKTHKKVPVTCSGVSARQRRLNSKKK 163
SMLEKQW L FE K V V SGVSA +++
Sbjct: 109 SMLEKQWKLPFEDDDGGGDGHHGDDIDSAEDDDGKSRSSSVVVARSGVSA-------RQR 161
Query: 164 ILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLS 223
+S + + GS + ISPEL+Q+R + Y++G VS+ELLTH +VV LSKKIK G+
Sbjct: 162 RMSGRRRGRSKKGSGAVHLSISPELLQSRNRIYLRGTVSKELLTHKQVVHLSKKIKDGIW 221
Query: 224 LDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQR 274
L + +L E LG+ SLRIS PEL+S + E LARE L MSN+RLV+SIAQ+
Sbjct: 222 LQQQRSKLTEILGNEPSYKQMAQSLRISTPELRSRMRESFLAREVLTMSNIRLVISIAQK 281
Query: 275 YDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP 334
YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSRT RLP
Sbjct: 282 YDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRTFRLP 341
Query: 335 NHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPS 394
++HERL IR AK LE++GV+P+ IAE LN+S+KKV NATEA+ K SLD++AFPS
Sbjct: 342 TYMHERLIAIRAAKYALEDQGVSPTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPS 401
Query: 395 LNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE 454
LNGLPG+T HSYI D V N+PWHG ++W LK+EVN L+I L ERER IIRLY+G+ K+
Sbjct: 402 LNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQ 461
Query: 455 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
C TWEDIS++ GLSRERVRQVGL+A+EKLKHAAR+KK++A+L
Sbjct: 462 CHTWEDISRQFGLSRERVRQVGLIAMEKLKHAARRKKLDALL 503
>gi|2624403|emb|CAA74653.1| plastid RNA polymerase sigma factor [Sorghum bicolor]
Length = 500
Score = 468 bits (1203), Expect = e-129, Method: Compositional matrix adjust.
Identities = 268/515 (52%), Positives = 357/515 (69%), Gaps = 37/515 (7%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
M AT A+IGLSAGKRLL++SF +D++ ++ S + K V A ++S +
Sbjct: 1 MTATPAMIGLSAGKRLLATSFGNTDLAPPDAH----PSLQFAPAAPKLTVVAHRASASSS 56
Query: 61 SF---PSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSI-------EEESSELDYSVEA 110
S P+ + + I+AL+ H A PP + E EL+ S+EA
Sbjct: 57 SSSSSPAGHARAHAIRALRNHSAPALAPPLPLPLPPPPAADPAPELDSEFEFELESSLEA 116
Query: 111 LLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKS 170
++LLQ+SMLEKQW L FE D + T V V SGVSARQRR++ +++ KS
Sbjct: 117 IVLLQRSMLEKQWQLPFEDEDEDDE--RLTKAAVVVARSGVSARQRRMSGRRRG-PGRKS 173
Query: 171 ILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR 230
+ +SPEL+Q+R + Y++G VS++LLTH +V++LS+KIK G+ L + +
Sbjct: 174 V-----------TVSPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSK 222
Query: 231 LKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 281
LKE+LG+ SL IS PEL++ + E LARE L MSN+RLV+SIAQ+YDN+G +
Sbjct: 223 LKEKLGNEPSYKQLAQSLHISPPELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVE 282
Query: 282 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 341
+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+ RLP +LHERL
Sbjct: 283 LADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKAFRLPTYLHERL 342
Query: 342 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 401
IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+
Sbjct: 343 IAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVNKVLSLDQQAFPSLNGLPGD 402
Query: 402 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 461
T HSYI D V N+PWHG ++ LK+EVN LI L ERER+IIRLY+G+ K+C TWEDI
Sbjct: 403 TLHSYIEDQNVANDPWHGFEERYLKEEVNNLINSNLNERERDIIRLYHGIGKQCHTWEDI 462
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
S++ GLSRERVRQVGLVA+EKLKHAAR+K ++A+L
Sbjct: 463 SRQFGLSRERVRQVGLVAMEKLKHAARRKHLDALL 497
>gi|326523529|dbj|BAJ92935.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 466 bits (1200), Expect = e-128, Method: Compositional matrix adjust.
Identities = 263/522 (50%), Positives = 342/522 (65%), Gaps = 45/522 (8%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGS--ANSQVGSTKNVVAAKKSSNY 58
M AT ++IGLSAG RLLS+SF NDL S NS + S S +
Sbjct: 1 MTATPSLIGLSAGNRLLSTSF---------GPPNDLLSDKVNSHMTSAAGDAHGSSSLQF 51
Query: 59 NPSFPSSNRQTQPIKALK--EHVDTNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQK 116
P P++++ T LK H A P ++ ++S++A++LLQ+
Sbjct: 52 AP--PAASKLTVAAHRLKLSPHGRAQVMRALRQSALAPQPPPLLLAD-EFSLDAIILLQR 108
Query: 117 SMLEKQWNLSFERTVLTDSP-------------SKKTHKKVPVTCSGVSARQRRLNSKKK 163
SMLEKQW L FE K V V SGVSA +++
Sbjct: 109 SMLEKQWKLPFEDDDGGGDGHHGDDIDSAEDDDGKSRSSSVVVARSGVSA-------RQR 161
Query: 164 ILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLS 223
+S + + GS + ISPEL+Q+R + Y++G VS+ELLTH +VV LSKKIK G+
Sbjct: 162 RMSGRRRGRSKKGSGAVHLSISPELLQSRNRIYLRGTVSKELLTHKQVVHLSKKIKDGIW 221
Query: 224 LDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQR 274
L + +L E LG+ SLRIS PEL+S + E LARE L MSN+RLV+SIAQ+
Sbjct: 222 LQQQRSKLTEILGNEPSYKQMAQSLRISTPELRSRMRESFLAREVLTMSNIRLVISIAQK 281
Query: 275 YDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP 334
YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+T RLP
Sbjct: 282 YDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKTFRLP 341
Query: 335 NHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPS 394
++HERL IR AK LE++GV+P+ IAE LN+S+KKV NATEA+ K SLD++AFPS
Sbjct: 342 TYMHERLIAIRAAKYALEDQGVSPTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPS 401
Query: 395 LNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE 454
LNGLPG+T HSYI D V N+PWHG ++W LK+EVN L+I L ERER IIRLY+G+ K+
Sbjct: 402 LNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQ 461
Query: 455 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
C TWEDIS++ GLSRERVRQVGL+A+EKLKHAAR+KK++A+L
Sbjct: 462 CHTWEDISRQFGLSRERVRQVGLIAMEKLKHAARRKKLDALL 503
>gi|413921194|gb|AFW61126.1| RNA polymerase sigma factor 2 [Zea mays]
Length = 504
Score = 459 bits (1182), Expect = e-126, Method: Compositional matrix adjust.
Identities = 237/407 (58%), Positives = 311/407 (76%), Gaps = 24/407 (5%)
Query: 102 SELDYSVEALLLLQKSMLEKQWNLSFERTVLT--DSPSKKTHKKVPVTC-SGVSARQRRL 158
SE + S+EA++LLQ+SMLEKQW L FE +++ D + K V SGVSARQRR+
Sbjct: 107 SEFESSLEAIVLLQRSMLEKQWELPFEDDIISTDDEQDDRVSKATVVAARSGVSARQRRM 166
Query: 159 NSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKI 218
+ +++ + KS+ ISPEL+Q+R + Y++G VS++LLTH +V++LS+KI
Sbjct: 167 SGRRRG-AGRKSV-----------AISPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKI 214
Query: 219 KTGLSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVM 269
K G+ L + +LKE+LG+ SLRIS PEL++ + E LARE L MSN+RLV+
Sbjct: 215 KDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRISAPELRARMRESFLAREMLTMSNIRLVI 274
Query: 270 SIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSR 329
SIA +YDN+G D+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+
Sbjct: 275 SIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSK 334
Query: 330 TLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 389
T RLP +LHERL IR AK LE++G+ P+++ IAE LN+S+KKV NATEA+ KV SLD+
Sbjct: 335 TFRLPTYLHERLIAIRGAKYALEDQGIAPTIENIAESLNISEKKVHNATEAVNKVLSLDQ 394
Query: 390 EAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYY 449
+AFPSLNGLPG+T HSYI D V N+PWHG ++ LK+EVN LI L ERER+IIRLY+
Sbjct: 395 QAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEEMYLKEEVNNLINSNLNERERDIIRLYH 454
Query: 450 GLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
G+ K+C TWEDIS++ GLSRERVRQVGLVA+EKLKHAAR+K ++A+L
Sbjct: 455 GIGKQCHTWEDISRQFGLSRERVRQVGLVAMEKLKHAARRKHLDALL 501
>gi|3893860|gb|AAC78467.1| RNA polymerase sigma factor 1 [Zea mays]
Length = 398
Score = 452 bits (1163), Expect = e-124, Method: Compositional matrix adjust.
Identities = 235/404 (58%), Positives = 309/404 (76%), Gaps = 23/404 (5%)
Query: 103 ELDYSVEALLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKK 162
E + S+EA++LLQ+SMLEKQW L FE + T+ +++ V V SGVSARQRR++ ++
Sbjct: 5 EFESSLEAIVLLQRSMLEKQWELPFEDDISTEDEDERS--TVVVARSGVSARQRRMSGRR 62
Query: 163 K-ILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG 221
+ KS+ +SPEL+Q+R + Y++G VS++LLTH +VV+LS+KIK G
Sbjct: 63 RGAFVGRKSV-----------TVSPELMQSRNRIYLRGTVSKDLLTHKQVVQLSRKIKDG 111
Query: 222 LSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIA 272
+ L + +LKE+LG+ SLRI PEL++ + E LARE L MSN RLV+SIA
Sbjct: 112 IWLQHQRSKLKEKLGNEPSYKQLAQSLRIPAPELRARMRESFLAREMLAMSNTRLVISIA 171
Query: 273 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 332
Q+YDN+G ++ DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSR+ R
Sbjct: 172 QKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRSFR 231
Query: 333 LPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
LP +LHERL IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AF
Sbjct: 232 LPTYLHERLVAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVHKVISLDQQAF 291
Query: 393 PSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD 452
PSLNGLPG+T HSYI D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+
Sbjct: 292 PSLNGLPGDTLHSYIEDQNVANDPWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGIG 351
Query: 453 KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
K+C TWEDIS++ GLSRERVRQVGLVA+EKLKHAAR++ ++A+L
Sbjct: 352 KQCHTWEDISRQFGLSRERVRQVGLVAMEKLKHAARREHLDALL 395
>gi|357144851|ref|XP_003573435.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 531
Score = 451 bits (1160), Expect = e-124, Method: Compositional matrix adjust.
Identities = 266/534 (49%), Positives = 356/534 (66%), Gaps = 44/534 (8%)
Query: 1 MMATAAVIGLSAGKRLLSSSF---------------YYSDISEKFSYINDLGSANSQVGS 45
M AT AVIGLSAG RLL +SF Y + S + S++ Q G+
Sbjct: 1 MTATPAVIGLSAGNRLLGTSFGPPSGDLLCDKVSSHYLAGGDGSSSSSSSASSSSLQFGA 60
Query: 46 ---TKNVVAAKKSSNYNPSFPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESS 102
+K VAA + S + + Q ++AL++ + A P P ++
Sbjct: 61 PAASKLTVAAHRLK------LSPHGRAQVMRALRQSAPAAVLALAPPPHPSPPPPAPAAA 114
Query: 103 ELDYSVEA--LLLLQKSMLEKQWNLSFERT--------VLTDSPSKKTHKKVPVTCSGVS 152
E + S+EA ++LLQ+SMLEKQW+L FE + V V SGVS
Sbjct: 115 EGELSLEATAIVLLQRSMLEKQWHLPFEDEDEDEEDDDAIGSGADAIGSAAVVVARSGVS 174
Query: 153 ARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELI-QNRLKGYVKGVVSEELLTHAEV 211
AR+RR++ +++ S + G +SP L+ Q+R + Y++G VS+ELLTH +V
Sbjct: 175 ARERRMSGRRRGRSSSSKAKSGGGGGAQLGGVSPSLLMQSRNRIYLRGSVSKELLTHKQV 234
Query: 212 VRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREKLVM 262
V+LSKKIK G+ L + +LKE+LG+ SLRIS PEL+S + + LARE L M
Sbjct: 235 VQLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTPELRSRMRDSFLAREVLTM 294
Query: 263 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 322
SN+RLV+SIAQ+YD +G ++ DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSR
Sbjct: 295 SNLRLVISIAQKYDKLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSR 354
Query: 323 ALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 382
AL +NS+T RLP +LHERL IR AK LE++G++P+ + IAE LN+S+KKV NAT+A+
Sbjct: 355 ALADNSKTFRLPTYLHERLIAIRGAKYALEDQGISPTTENIAESLNISEKKVHNATDAVN 414
Query: 383 KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
KV SLDR+AFPSLNGLPG+T HSYI D V N+PWHG + W LK+EVNKL+ TL ERER
Sbjct: 415 KVLSLDRQAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEQWYLKEEVNKLLNSTLTERER 474
Query: 443 EIIRLYYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+IIRLY+G+ K+C TWEDIS++ GLSRERVRQVGL+A++KLKHAAR+KK++A+L
Sbjct: 475 DIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMQKLKHAARRKKLDALL 528
>gi|125602291|gb|EAZ41616.1| hypothetical protein OsJ_26150 [Oryza sativa Japonica Group]
Length = 420
Score = 448 bits (1152), Expect = e-123, Method: Compositional matrix adjust.
Identities = 232/397 (58%), Positives = 299/397 (75%), Gaps = 24/397 (6%)
Query: 115 QKSMLEKQWNLSFE------RTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQN 168
++SMLEKQW L F+ L + + V V S VSARQRR++ +++ ++N
Sbjct: 30 KRSMLEKQWELPFDDDNHAMAIGLAEDDDDTSKATVVVARSSVSARQRRMSGRRRGRTKN 89
Query: 169 KSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
G+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK G+ L +
Sbjct: 90 -------GAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQR 140
Query: 229 LRLKERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 279
+LKE+LG+ SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G
Sbjct: 141 SKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLG 200
Query: 280 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 339
++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHE
Sbjct: 201 VELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHE 260
Query: 340 RLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLP 399
RL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLP
Sbjct: 261 RLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLP 320
Query: 400 GETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWE 459
GET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWE
Sbjct: 321 GETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWE 380
Query: 460 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
DIS++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 381 DISRQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 417
>gi|4218586|emb|CAA10725.1| chloroplast sigma factor [Triticum aestivum]
Length = 461
Score = 446 bits (1146), Expect = e-122, Method: Compositional matrix adjust.
Identities = 230/417 (55%), Positives = 301/417 (72%), Gaps = 32/417 (7%)
Query: 105 DYSVEALLLLQKSMLEKQWNLSFERTVLT----------------DSPSKKTHKKVPVTC 148
++S++A++LLQ+SMLEKQW L FE D K V V
Sbjct: 49 EFSLDAIILLQRSMLEKQWQLPFEEEDDDDGGGDGHHVEAIGSAEDDDGKGRSSSVVVAR 108
Query: 149 SGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTH 208
SGVSA +++ +S + + GS + ISPEL+Q+R + Y++G VS+ELLT
Sbjct: 109 SGVSA-------RQRRMSGRRRGRSKKGSGAVHLSISPELLQSRNRIYLRGTVSKELLTQ 161
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISRPELQSILMECSLAREK 259
+VV LSKKIK G+ L + +LKE+LG+ SLRIS PEL+S + E LARE
Sbjct: 162 KQVVHLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTPELRSRMRESFLAREV 221
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
L MSN+RLV+SIAQ+YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQG
Sbjct: 222 LTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 281
Query: 320 VSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 379
VSRAL +NS+T RLP +LHERL IR AK LE++GV+P+ IA+ LN+S+KKV NATE
Sbjct: 282 VSRALADNSKTFRLPTYLHERLIAIRGAKYALEDQGVSPTTQNIAKLLNISEKKVHNATE 341
Query: 380 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 439
A+ K SLD++AFPSLNGLPG+T HSYI D V N+PWHG ++W LK+EVNKL+ L E
Sbjct: 342 AVNKALSLDQQAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSNLTE 401
Query: 440 REREIIRLYYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
RER+II+LY+G+ K+C TWEDIS++ GLSRERVRQVGL+A+EKLK AR+KK++A+L
Sbjct: 402 RERDIIQLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKLKQRARRKKLDALL 458
>gi|37806470|dbj|BAC99905.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 388
Score = 446 bits (1146), Expect = e-122, Method: Compositional matrix adjust.
Identities = 231/394 (58%), Positives = 296/394 (75%), Gaps = 24/394 (6%)
Query: 118 MLEKQWNLSFE------RTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSI 171
MLEKQW L F+ L + + V V S VSARQRR++ +++ ++N
Sbjct: 1 MLEKQWELPFDDDNHAMAIGLAEDDDDTSKATVVVARSSVSARQRRMSGRRRGRTKN--- 57
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
G+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK G+ L + +L
Sbjct: 58 ----GAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKL 111
Query: 232 KERLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 282
KE+LG+ SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++
Sbjct: 112 KEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVEL 171
Query: 283 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 342
ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL
Sbjct: 172 ADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLI 231
Query: 343 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 402
IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET
Sbjct: 232 AIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGET 291
Query: 403 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDIS 462
HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS
Sbjct: 292 LHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDIS 351
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 352 RQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 385
>gi|37806471|dbj|BAC99906.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 342
Score = 437 bits (1124), Expect = e-120, Method: Compositional matrix adjust.
Identities = 212/332 (63%), Positives = 268/332 (80%), Gaps = 11/332 (3%)
Query: 174 QNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE 233
+NG+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK G+ L + +LKE
Sbjct: 10 KNGAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKE 67
Query: 234 RLGS---------SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 284
+LG+ SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++AD
Sbjct: 68 KLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELAD 127
Query: 285 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI 344
L+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL I
Sbjct: 128 LIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLIAI 187
Query: 345 RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 404
R AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET H
Sbjct: 188 RGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLH 247
Query: 405 SYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKR 464
SYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS++
Sbjct: 248 SYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDISRQ 307
Query: 465 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 308 FGLSRERVRQVGLIAMEKLKHAARRKNLEALL 339
>gi|125560253|gb|EAZ05701.1| hypothetical protein OsI_27933 [Oryza sativa Indica Group]
Length = 372
Score = 437 bits (1124), Expect = e-120, Method: Compositional matrix adjust.
Identities = 226/372 (60%), Positives = 288/372 (77%), Gaps = 21/372 (5%)
Query: 134 DSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRL 193
D SK T V V S VSARQRR++ +++ + +NG+ +SPELIQ+R
Sbjct: 10 DDTSKAT---VVVARSSVSARQRRMSGRRRGRT-------KNGAAHF--AVSPELIQSRN 57
Query: 194 KGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISRP 244
+ Y++G VS+ELLTH +VV LS KIK G+ L + +LKE+LG+ SL+IS P
Sbjct: 58 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 117
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++ADL+QGGLIGLLRGIEKFD+S+
Sbjct: 118 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 177
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIA 364
GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL IR AK LE++G+ P+++ IA
Sbjct: 178 GFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLIAIRGAKYELEDQGIAPTIENIA 237
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET HSYI D V N+PWHG ++W
Sbjct: 238 GSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLHSYIEDQNVANDPWHGFEEWY 297
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS++ GLSRERVRQVGL+A+EKLK
Sbjct: 298 LKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKLK 357
Query: 485 HAARKKKMEAML 496
HAAR+K +EA+L
Sbjct: 358 HAARRKNLEALL 369
>gi|3769432|gb|AAC78468.1| RNA polymerase sigma factor 2 [Zea mays]
Length = 349
Score = 423 bits (1087), Expect = e-115, Method: Compositional matrix adjust.
Identities = 204/322 (63%), Positives = 260/322 (80%), Gaps = 9/322 (2%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS------ 237
ISPEL+Q+R + Y++G VS++LLTH +V++LS+KIK G+ L + +LKE+LG+
Sbjct: 25 ISPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQ 84
Query: 238 ---SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 294
SLRIS PEL++ + E LARE L MSN+RLV+SIA +YDN+G D+ADL+QGGLIGLL
Sbjct: 85 LAQSLRISAPELRARMRESFLAREMLTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLL 144
Query: 295 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 354
RGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+T RLP +LHERL IR AK LE++
Sbjct: 145 RGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKTFRLPTYLHERLLAIRGAKYALEDQ 204
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 414
G+ P+++ IAE LN+S KKV NATEA+ KV SLD++AFPSLNGLPG+T HSYI D V N
Sbjct: 205 GIAPTIENIAESLNISVKKVHNATEAVHKVLSLDQQAFPSLNGLPGDTLHSYIEDQNVAN 264
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 474
+PWHG ++ LK+EVN LI L ERER+IIRLY+G+ K+C TWEDIS++ GLSRERVRQ
Sbjct: 265 DPWHGFEEMYLKEEVNNLINSNLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQ 324
Query: 475 VGLVALEKLKHAARKKKMEAML 496
V LVA+EKLKHAAR+K + A+L
Sbjct: 325 VRLVAMEKLKHAARRKHLNALL 346
>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 = 269 bits (687), Expect = 3e-69, Method: Compositional matrix adjust.
Identities = 158/402 (39%), Positives = 245/402 (60%), Gaps = 28/402 (6%)
Query: 113 LLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSIL 172
L++ + E ++ E V + SPS +T + + +RQRR+ K S + +
Sbjct: 282 LVEDACPESTSTMTTELVVKSGSPSARTRR--------LESRQRRVAIAGKPTSPDALTI 333
Query: 173 Q-----QNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
Q G + R + + +Q+ L Y++ + LLT E V LSKK++ GL+L +
Sbjct: 334 HPLKKYQKGERVRR--VKFDGVQDYLTTYLREITKINLLTKQEEVFLSKKLRIGLNLLEE 391
Query: 228 KLRLKERLG---------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNM 278
+ +L LG + +S +L L E AR+K+VM+N+RLV+S+A++Y +
Sbjct: 392 RKKLAAELGYVPSNEEWAPHMNLSVGDLVRKLGEAEWARDKMVMANLRLVVSVAKQYHSF 451
Query: 279 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLH 338
G +MADL+Q G IGLLRG+EKFD ++G+K+STYV+WWIRQGV+RA+ ++SRT+RLP H+H
Sbjct: 452 GLEMADLIQEGSIGLLRGVEKFDHTRGYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVH 511
Query: 339 ERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE-AFPSLNG 397
+ LG IR AK L +G T SV I+E N++ K++N + K+ SLD+E +L
Sbjct: 512 DTLGRIRKAKSTLLSEGCTASVQEISEATNLTGTKIKNTLQVTKKLVSLDKEIGRNTLQS 571
Query: 398 LPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE--- 454
GET HS +AD +EN PW V+ +KD+V+KL+ LG RER+I+RL+YG+ +E
Sbjct: 572 GDGETLHSLVADRDIENQPWTIVERMLMKDDVDKLLTSQLGPRERDIVRLHYGVGREDGS 631
Query: 455 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ E IS R G+SRERVRQ+ A+ KL+ +R++ ++ L
Sbjct: 632 VMSLESISYRYGVSRERVRQLETAAMRKLQIKSREQGLDRYL 673
>gi|407327701|dbj|BAM45408.1| sigma factor 1 [Marchantia polymorpha]
Length = 574
Score = 248 bits (634), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 181/562 (32%), Positives = 294/562 (52%), Gaps = 81/562 (14%)
Query: 2 MATAAVIGLSA--GKRLLSSSFYYSDISEKF-----------SYINDLG--SANSQV-GS 45
MA A V G K+ L S+ + D+ E+ Y LG +A+S +
Sbjct: 1 MAMAGVAGFQVVIHKKQLFSTAWKLDVQERLWGRGGKCDGNVHYSRQLGPRAASSAIKAG 60
Query: 46 TKNVVAAKKSSNYNPSFPSSNRQTQPIKALKEHVDTNFASTA----EPWAEPPNS----- 96
+ +KK+++ S S + +P+ A ++ + ++A + PP
Sbjct: 61 AEGSNGSKKAASKKGS--SKAGRGEPVMAFRDQIAVCALASATLDRAAVSSPPRGSIVLD 118
Query: 97 ----IEEESSELDYSVEALLLLQKSMLEKQWNLSFERTVLTDSPSKKTH----------- 141
+ EL + +A L++S LE QW+L V P+ +
Sbjct: 119 EGARVAAPGRELSPAGDAATSLERSRLESQWSLFLSDAVDRPLPNLEGMGEDFGEEVVDV 178
Query: 142 -------------KKVPVTCSG-VSARQRRLNSKKKILS--QNKSILQQNGSKQLRSMIS 185
K V V SG SAR RRL ++++ LS + S ++ LR S
Sbjct: 179 QEEDSANGLSDGLKAVKVISSGRPSARLRRLEARQRRLSGVEKPSPMEAFMIHPLRKTES 238
Query: 186 ---------PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
PE +Q+ L Y++ + + LT E + LSKKI+TG L + + + + LG
Sbjct: 239 SSKADKAKKPEGVQDYLSTYLRDITKIDRLTAEEEIMLSKKIRTGYILKEERKKFERALG 298
Query: 237 ---------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
+ ++ +L + L E LAR+++VM+N+RLV+S+ ++Y+ G ++ DL+Q
Sbjct: 299 HPITKDQWAGHMHMAVGDLDAQLHEAELARDRMVMANLRLVVSVVKQYNCEGLEVPDLIQ 358
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 347
G IGLL+G+EKFD ++G+K+STYV+WWIRQGV+RA+ ++SRT+RLP H+H+ LG IR
Sbjct: 359 EGSIGLLKGVEKFDHTRGYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVHDTLGRIRRT 418
Query: 348 KLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG--ETHHS 405
+ R+ + G +V +++ LN+S +V+NA + K+ SLD + + L G ET HS
Sbjct: 419 RARMLQDGAPATVQTLSKALNLSDNQVKNALKVPKKLKSLDMQVGHQKSVLTGDTETFHS 478
Query: 406 YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK---ECLTWEDIS 462
+AD EN+PW V+ +K++V+K++ LG REREII+++YG+D ++ E IS
Sbjct: 479 LVADQDSENHPWAVVEKAHMKEDVDKMLNTQLGSREREIIKMHYGVDSVDGYPMSLESIS 538
Query: 463 KRIGLSRERVRQVGLVALEKLK 484
R G+SRERVRQ+ A KL+
Sbjct: 539 HRYGVSRERVRQLERAAKRKLQ 560
>gi|346680879|gb|AEO45243.1| sigma factor [Nicotiana tabacum]
Length = 264
Score = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 146/267 (54%), Positives = 187/267 (70%), Gaps = 16/267 (5%)
Query: 6 AVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPSFPSS 65
A+IGLSAG R+LSSSFYYSD++EKF ++D S KNV+ AK SSNY+PS+ S
Sbjct: 3 AIIGLSAGNRILSSSFYYSDLTEKFC-VSDHALPCHHFPSPKNVINAKNSSNYSPSY-VS 60
Query: 66 NRQTQPIKALKEHVD--TNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQKSMLEKQW 123
NR+ Q +KALKEHVD +N S EPW + ++ S + SVE LLLLQKSMLEKQW
Sbjct: 61 NRKKQSVKALKEHVDIASNRDSDTEPWVQMFKQLQNGSCSEEDSVEVLLLLQKSMLEKQW 120
Query: 124 NLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSM 183
NLS E+ + ++ KK K+ TCSG SAR+RR++++K+ L S + +K+LRS+
Sbjct: 121 NLSAEKAMTNENNCKK---KMQTTCSGTSARRRRMDTRKRDLLPKNSATSDSSNKRLRSV 177
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS------ 237
I PEL+QNR KGY+ GVV +ELLTH EVV+LSKKIK GL L++ K RLKERLG
Sbjct: 178 IGPELLQNRSKGYINGVVGQELLTHTEVVQLSKKIKFGLYLEEQKSRLKERLGCEPSDDQ 237
Query: 238 ---SLRISRPELQSILMECSLAREKLV 261
SL+ISR +L+SIL+ECSLAREKL
Sbjct: 238 LAISLKISRADLRSILIECSLAREKLA 264
>gi|159899067|ref|YP_001545314.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159892106|gb|ABX05186.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 386
Score = 178 bits (451), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 114/310 (36%), Positives = 179/310 (57%), Gaps = 11/310 (3%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y++ + LLT AE V L+KK++ + +D L+ L S RIS L+
Sbjct: 85 LDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQDDGMLEHSDRIS---LKR 141
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+ AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K
Sbjct: 142 HIDTGRAARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKF 201
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P+ + IAE +
Sbjct: 202 STYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREPTPEEIAEAM 261
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD 427
++ KVR EA SL+ G G+ +I D+RV + P L++
Sbjct: 262 GITASKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRV-STPVDAAAMTMLRE 316
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H
Sbjct: 317 QIEE-VLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHP 375
Query: 487 ARKKKMEAML 496
KK+ L
Sbjct: 376 HLGKKLRGYL 385
>gi|443289588|ref|ZP_21028682.1| RNA polymerase sigma factor rpoD [Micromonospora lupini str. Lupac
08]
gi|385887203|emb|CCH16756.1| RNA polymerase sigma factor rpoD [Micromonospora lupini str. Lupac
08]
Length = 338
Score = 177 bits (450), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 112/320 (35%), Positives = 187/320 (58%), Gaps = 29/320 (9%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS- 242
IS +L+ + Y+ G+ +LLT A+ V L+++I+ GL D E+L + +S
Sbjct: 36 ISTDLV----RAYLNGIGRTKLLTAAQEVDLARRIEAGLFAD-------EKLATCTPVSE 84
Query: 243 --RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
R +L+ I+ E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 85 ELRADLELIVAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKF 144
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 359
D +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L G P+
Sbjct: 145 DYAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELAVTLGREPT 204
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENN 415
V +A L++ + +V ++ S DRE SL+ G+ S ++A +
Sbjct: 205 VAEVARALDIPEFQVI-------ELISYDREPV-SLDQAVGDDGESALGDFVASVDPRTD 256
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
P G L++EV+ +++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ
Sbjct: 257 PGEGAAQGELRNEVS-IVLSTLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQ 315
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ V L KL+ R +++EA
Sbjct: 316 IEKVTLLKLRAPERAQRLEA 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 = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 113/307 (36%), Positives = 180/307 (58%), Gaps = 18/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+ G+ +LLT A+ V L+K+I+ GL + KL + + L+ +L I E
Sbjct: 39 VRAYLNGIGRTKLLTAAQEVELAKRIEAGL-FAEEKLTTCTPVSAQLQ---ADLTLIAQE 94
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 95 GQAAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 154
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L G PSV IA L++ +
Sbjct: 155 TWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELSVSLGREPSVAEIARALDVPE 214
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD---WALKDE 428
+V ++ S DRE SL+ GE S + D +P VDD L++E
Sbjct: 215 FQVI-------ELISYDREPV-SLDQTVGEDGESALGDFVAAVDPSSMVDDADRGELRNE 266
Query: 429 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
V+ +++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ V L KL+
Sbjct: 267 VS-IVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLRAPE 325
Query: 488 RKKKMEA 494
R +++EA
Sbjct: 326 RAQRLEA 332
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 116/332 (34%), Positives = 191/332 (57%), Gaps = 19/332 (5%)
Query: 172 LQQNGSKQLRSMISPEL---IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
L+ GS + S I PE + + Y++ + LLT AE V L+++++ GL + K
Sbjct: 84 LETAGSAEPASRIRPETGGPSSDLFRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEK 142
Query: 229 LRLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 288
LRL L S L + +L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ
Sbjct: 143 LRLTPDLDSGLAL---DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQE 199
Query: 289 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNA 347
G +GL+R +EKFD ++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R
Sbjct: 200 GNLGLIRAVEKFDYARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQ 259
Query: 348 KLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 407
+ L+E+G P+ +A +L++ ++V G+V L +E SL+ GE +
Sbjct: 260 RRMLQERGYEPTPGEVAAHLDLPPERV-------GEVLRLAQEPV-SLHAPVGEEDDVAL 311
Query: 408 ADNRVENNPWHGVDDWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKR 464
D + + V+ A L E + ++ TLGERER++++L YGL D T E+I +
Sbjct: 312 GDLIEDGDAASPVESAAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRL 371
Query: 465 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
G++RER+RQ+ L KL+ A ++ L
Sbjct: 372 FGVTRERIRQIESKTLNKLRDHAFADQLRGYL 403
>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 = 176 bits (445), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 181/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KLRL L S L + +L +++
Sbjct: 142 FRQYLREIGRVPLLTAAEEVELARRVEAGL-FAEEKLRLAPDLDSQLAV---DLDRLVVM 197
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 198 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 257
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L +
Sbjct: 258 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLELPP 317
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V G+V L +E SL+ GE + D + + V+ A L E
Sbjct: 318 ERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 369
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 370 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 429
Query: 489 KKKMEAML 496
++ L
Sbjct: 430 ADQLRGYL 437
>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 = 176 bits (445), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 98/267 (36%), Positives = 165/267 (61%), Gaps = 9/267 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K+R + +S EL SIL + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +
Sbjct: 135 KQRWAEQVGLSVKELDSILKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTL 194
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R ++KFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++
Sbjct: 195 GLERAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNKIKKAQRQI 254
Query: 352 EE-KGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+ +G TPS+D +A+ L M+ ++VR + + + SL+ + G+ + A
Sbjct: 255 SQTQGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTELGDLLETQDA-- 312
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
+P + +L+ +++ L + L +RERE+I+L YGL D + + +I + + LSR
Sbjct: 313 ----SPEENLVRESLQRDLHNL-LTELTDREREVIQLRYGLGDGKTYSLAEIGRMLELSR 367
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAML 496
ERVRQ+ AL+KL+ R+ M L
Sbjct: 368 ERVRQIEAKALQKLRQPKRRNIMRDYL 394
>gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii]
gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii]
Length = 485
Score = 175 bits (444), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 181/308 (58%), Gaps = 18/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LL E ++L+++I L + K+ L+E+L ++ ++S
Sbjct: 132 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 191
Query: 244 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
+ ++IL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 192 VKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 251
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 361
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 252 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 311
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 312 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 366
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
L+D++ +I +L RER+++R+ YGLD T E+I + ++RERVRQ+ A+
Sbjct: 367 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 425
Query: 481 EKLKHAAR 488
KL+ R
Sbjct: 426 RKLRQPYR 433
>gi|399950016|gb|AFP65672.1| RNA-polymerase sigma factor [Chroomonas mesostigmatica CCMP1168]
Length = 485
Score = 175 bits (443), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 182/308 (59%), Gaps = 18/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LL E ++L+++I L + K+ L+E+L ++ ++S
Sbjct: 135 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 194
Query: 244 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
+ ++IL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 195 VKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 254
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 361
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 255 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 314
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 315 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 369
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 480
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 370 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 428
Query: 481 EKLKHAAR 488
KL+ R
Sbjct: 429 RKLRQPYR 436
>gi|407327703|dbj|BAM45409.1| sigma factor 2 [Marchantia polymorpha]
Length = 615
Score = 174 bits (442), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 184/318 (57%), Gaps = 17/318 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLR 240
Q+ ++ Y++ + +LLT +E + L++ I+ L ++ K L+E++G ++
Sbjct: 302 QDPVRAYLRDIGKTKLLTSSEEIELAEGIQDLLRVESVKNDLREQMGREPTLMEWAKAVG 361
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
R L+S + ++++V SN+RLV+SIA+RY G + DL+Q G +GL+RG EKF
Sbjct: 362 TERHSLESRIKSGQACKDRMVNSNLRLVVSIAKRYQGRGMTIQDLIQEGSMGLIRGAEKF 421
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D ++GFK STY +WWIRQ ++RA+ + SRT+RLP H++E L I AK L E G P
Sbjct: 422 DHTRGFKFSTYAHWWIRQAITRAIADQSRTIRLPVHVYELLSRITKAKSMLAAEHGRAPR 481
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ +AE + +S +K++ ++ S++ FP G +T + ++ ++P
Sbjct: 482 DEEVAELVGLSIEKLKMVIKSARSPKSME---FPV--GKNNDTTLGEVIPDKDIDSPEEA 536
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 478
+ LK +++ +++ TL RER+++RL YGLD + T E+I ++RER+RQ+
Sbjct: 537 ISKRLLKQDLD-VVLHTLSPRERDVLRLRYGLDDGRMRTLEEIGNVFKVTRERIRQIEAK 595
Query: 479 ALEKLKHAARKKKMEAML 496
AL KL+ +R + L
Sbjct: 596 ALRKLRQPSRNTALREYL 613
>gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta]
Length = 490
Score = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 108/308 (35%), Positives = 182/308 (59%), Gaps = 18/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LL E ++L+++I L + K+ L+E+L ++ ++S
Sbjct: 132 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 191
Query: 244 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
+ +SIL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 192 VKKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 251
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 361
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 252 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 311
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 312 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 366
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 480
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 367 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 425
Query: 481 EKLKHAAR 488
KL+ R
Sbjct: 426 RKLRQPYR 433
>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 = 174 bits (441), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 109/311 (35%), Positives = 181/311 (58%), Gaps = 25/311 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQSI 249
++ Y+ G+ +LLT + V L+K+I+ GL + E+L + +S R +L+ I
Sbjct: 37 VRAYLNGIGRTKLLTAEQEVELAKRIEAGLFAE-------EKLATCTPVSTVLRADLEII 89
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 90 VAEGRTAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 149
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L G P+V +A ++
Sbjct: 150 TYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELAVTLGREPTVAEVARAMD 209
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPWHGVDDWA 424
+ + +V ++ S DRE SL+ GE S ++A P D
Sbjct: 210 VPEFQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPAAEPGATAVDGE 261
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
L++EV ++++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ V L KL
Sbjct: 262 LRNEV-RIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKL 320
Query: 484 KHAARKKKMEA 494
+ R +++EA
Sbjct: 321 RAPERAQRLEA 331
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 182/308 (59%), Gaps = 18/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LL E ++L+++I L + K+ L+++L ++ ++S
Sbjct: 115 VRWYLQLIGRVRLLRPDEEIQLAREISQLLHWEHVKISLRDKLRREPTNSEWTAACKVSD 174
Query: 244 P-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
+ +SIL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 175 VRKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 234
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 361
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 235 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRNLNIEIGRSPTEE 294
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IA+ ++MS +K+RN ++ SL+R P N +I + + +P V+
Sbjct: 295 EIAKRMDMSVEKLRNVLQSAQPTLSLER---PLKNDDDTSQLSDFIEAD--QESPEEHVE 349
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 480
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 350 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 408
Query: 481 EKLKHAAR 488
KL+ R
Sbjct: 409 RKLRQPYR 416
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 108/312 (34%), Positives = 180/312 (57%), Gaps = 23/312 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK----ERLGSSLRISRPELQSILM 251
Y++ + LL AE + L+++I T LSL++ + + + E S ++ + +I+
Sbjct: 45 YLQEIGRVALLKPAEEIELARRIATWLSLEEKRSKFQAVAAESWLESANLTPQQWSTIVR 104
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A+ LV +N+RLV+S+A++Y G + DL+Q G +GL+R EKFD ++GFK STY
Sbjct: 105 EGERAKAHLVKANLRLVVSVAKKYQGRGLHLLDLIQEGTLGLIRAAEKFDYTRGFKFSTY 164
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMS 370
WWIRQG++RA+ +RT+RLP H+ E++ I+ A +L ++ G +PS D IA+ + M
Sbjct: 165 ATWWIRQGITRAIAMQARTIRLPVHIVEKVNRIKKATRQLSQQLGRSPSEDEIAQAVEMD 224
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDE 428
++R +AI SL+ G + + D N P HGV ++D
Sbjct: 225 ADQLRFVRKAIQLPVSLETPV--------GREEDTALGDLIQAKGNEPEHGV----VRDL 272
Query: 429 VNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+N+ ++ TL RER+++RL YGL D T +++ ++ GL+RER+RQ+ AL KL+
Sbjct: 273 MNQDLESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQQFGLTRERIRQIEARALRKLR 332
Query: 485 HAARKKKMEAML 496
H R +++ L
Sbjct: 333 HPQRLQRVREYL 344
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 109/307 (35%), Positives = 180/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y+K + LLTH E + +K+++ ++L+ + + E G + +ISR
Sbjct: 11 VRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLRDDIIEETGQEPTEIQWAKTAKISR 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
ELQSI+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELQSIIEIGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATVVE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDDGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++ +L + L +++E+I L +G LD + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLERL-MEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALSKLR 306
>gi|434399420|ref|YP_007133424.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
gi|428270517|gb|AFZ36458.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
Length = 318
Score = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 181/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y+K + LLTH E + +K+++ + ++ K L+++LG + I+
Sbjct: 11 VRSYLKEIGRVPLLTHEEEILYAKRVQQQIKVEKIKESLQDKLGEEPTESQWADAAEITV 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL++I+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELRNIIQAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++KG T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQKGRTATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L ++ K+VR E + SLD G+ + + + D + + +D
Sbjct: 191 LAEELELTPKQVREYLEKSRQPISLDVRV--------GDNNDTELGD--MLEDTGASPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ +++KL + L ++RE+I L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATYSSLRKDLDKL-MTDLTPQQREVISLRFGLSDGKPLTLAKIGDCLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALAKLR 306
>gi|383647771|ref|ZP_09958177.1| RNA polymerase sigma factor [Streptomyces chartreusis NRRL 12338]
Length = 430
Score = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 108/308 (35%), Positives = 181/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KLRL L S L + +L +++
Sbjct: 134 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLAPDLDSQLAL---DLDRLVVM 189
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 190 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 249
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 250 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPP 309
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 310 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLKEH 361
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 362 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 421
Query: 489 KKKMEAML 496
++ L
Sbjct: 422 ADQLRGYL 429
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 172/303 (56%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LLT + V L+K ++ G + RL +S R R EL+ + +
Sbjct: 88 YLQEIGQVPLLTAEQEVELAKAMEAGAIA---RQRLDREEYASAR-ERFELERAVQQGQD 143
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD KG K STY WW
Sbjct: 144 ARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGHKFSTYATWW 203
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP H+ E + ++ RL++ P+ + IA+ + +S KV
Sbjct: 204 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPEEIADAMGISAGKV 263
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 264 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASLLREQLEE-VL 317
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 318 MKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKLRHPHLGKKLR 377
Query: 494 AML 496
L
Sbjct: 378 GYL 380
>gi|336177646|ref|YP_004583021.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia symbiont of
Datisca glomerata]
gi|334858626|gb|AEH09100.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont
of Datisca glomerata]
Length = 392
Score = 172 bits (436), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 183/314 (58%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L ++ R + P +L
Sbjct: 93 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAAATRKTSPQMRRDL 145
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 146 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 205
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ V+RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 206 KFSTYATWWIRQAVTRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 265
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 266 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 317
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 318 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 377
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 378 LRHPSRSQKLRDYL 391
>gi|312196071|ref|YP_004016132.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia sp. EuI1c]
gi|311227407|gb|ADP80262.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EuI1c]
Length = 393
Score = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 109/304 (35%), Positives = 182/304 (59%), Gaps = 16/304 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+K + LLT AE V L+K+I+ GL KL RL +LR+ +L+++ +
Sbjct: 97 VRMYLKEIGKVPLLTAAEEVDLAKRIEAGL-FAAEKLGGGRRLTVALRV---DLEAVARD 152
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 153 GDVAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 212
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + IA+ ++++
Sbjct: 213 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIAKEMDLTP 272
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEV 429
KVR ++ + +E SL GE S++ D +++ VD + L E
Sbjct: 273 DKVR-------EILKVAQEPV-SLETPIGEEEDSHLGDFIEDSDAVVPVDAASFLLLQEQ 324
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L KL+H +R
Sbjct: 325 LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSR 384
Query: 489 KKKM 492
+K+
Sbjct: 385 SQKL 388
>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 = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 110/321 (34%), Positives = 182/321 (56%), Gaps = 29/321 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------------ 243
Y++ + LL E V L++K++ + L D +LRL++ LG ++
Sbjct: 51 YLQEIGRVPLLGRDEEVALAQKVQDYMKLLDLRLRLQKELGRDPTLAEWVAKANQYPEWA 110
Query: 244 ---PE-LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
PE LQ I A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EK
Sbjct: 111 QLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 170
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTP 358
FD KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG TP
Sbjct: 171 FDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTP 230
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNP 416
+++ IA L M+ +VR + + SL+ + G+ + + D + +P
Sbjct: 231 TIEDIASELEMTPPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDISP 282
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+ AL ++ +L + L RER++IR+ +GL D + +I + + LSRERVRQ+
Sbjct: 283 EETMMREALHRDLQQL-LSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQI 341
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 342 EAKALQKLRQPKRRNRVRDYL 362
>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 = 172 bits (435), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 105/303 (34%), Positives = 176/303 (58%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH E + L+K+++ ++L D K L + L S+ +I+
Sbjct: 11 VRAYLREIGRVPLLTHEEEIVLAKRVQRFMALQDIKDALTQTLKREPQDSEWASAAKITE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + A+EK+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELHRAIAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQAKGRAATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L ++ ++VR+ E + SLD + + + GE +P
Sbjct: 191 LAEELELTPRQVRDYLERARQPLSLDLKVGDNQDTELGELLED------TGTSPEDYATH 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E++ L +GL D + LT I R+ +SRERVRQ+ AL
Sbjct: 245 SSLQVDLEKL-MSDLTPQQKEVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALS 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 182/321 (56%), Gaps = 29/321 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------------ 243
Y++ + LL E V L+++++ + L D +LRL++ LG ++
Sbjct: 49 YLQEIGRVPLLGRDEEVALAQRVQDYMKLLDVRLRLQKELGREPTLAEWAARANQYPEWA 108
Query: 244 ---PE-LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
PE LQ I A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EK
Sbjct: 109 NLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 168
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTP 358
FD KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG TP
Sbjct: 169 FDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTP 228
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNP 416
+++ IA L M+ +VR + + SL+ + G+ + + D + +P
Sbjct: 229 TIEDIASELEMTVPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDISP 280
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+ AL ++ +L + L RER++IR+ +GL D + +I + + LSRERVRQ+
Sbjct: 281 EETMMREALHRDLQQL-LADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQI 339
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 340 EAKALQKLRQPKRRNRVRDYL 360
>gi|443327898|ref|ZP_21056505.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442792509|gb|ELS01989.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 318
Score = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 181/306 (59%), Gaps = 22/306 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISR 243
++ Y+K + +LLTH E + +K+++ ++L K L+E+LG ++S
Sbjct: 11 VRSYLKEIGRVDLLTHEEEIHYAKRVQREIALVKIKDSLQEKLGQEPTYSQWAKEAKLSV 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL++ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELKTTLEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRKLAQQKGRMATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE--NNPWHGV 420
+AE L ++ K+VR+ E + SLD + G+ + + + D V+ +P
Sbjct: 191 LAEELELTPKQVRDYLEKSRQPISLDVKV--------GDNNDTELGDMLVDMGQSPEDYA 242
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
+L+ ++++L + L +++E+I L +GL D + LT I + +SRERVRQ+ A
Sbjct: 243 TSSSLRKDLSRL-MSELTPQQQEVISLRFGLRDGKPLTLAKIGTFLSISRERVRQIEREA 301
Query: 480 LEKLKH 485
L KL+
Sbjct: 302 LTKLRQ 307
>gi|386852074|ref|YP_006270087.1| RNA polymerase principal sigma factor hrdB [Actinoplanes sp.
SE50/110]
gi|359839578|gb|AEV88019.1| RNA polymerase principal sigma factor hrdB [Actinoplanes sp.
SE50/110]
Length = 329
Score = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 111/310 (35%), Positives = 172/310 (55%), Gaps = 21/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+ G+ LLT E V LSK+I+ GL ++ L L I ++ E
Sbjct: 36 VRAYLNGIGRTRLLTAVEEVTLSKRIEAGLYAEEKLPAADAALAELLDI-------VIAE 88
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 89 GRAAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 148
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L + G PS+ IA + + +
Sbjct: 149 TWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRDLSAQLGREPSIAEIATAMAVPE 208
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE---NNPWHGVDDWALKDE 428
+V ++ S DRE SL+ GE S + D N P GV L+ E
Sbjct: 209 FQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPNQPGEGVSQGELRSE 260
Query: 429 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
V ++++ TL ERE +IRL +GLD T +++ + GLSRER+RQ+ V + KL+
Sbjct: 261 V-EIVLATLSERESAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTMLKLRDPE 319
Query: 488 RKKKMEAMLV 497
R ++EA V
Sbjct: 320 RASRLEAYAV 329
>gi|302866072|ref|YP_003834709.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC
27029]
gi|315502628|ref|YP_004081515.1| RpoD subfamily RNA polymerase sigma-70 subunit [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 = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 179/313 (57%), Gaps = 29/313 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQSI 249
++ Y+ G+ +LLT A+ V LSK+I+ GL + E+L + +S +L I
Sbjct: 31 VRAYLNGIGRTKLLTAAQEVELSKRIEAGLFAE-------EKLATCTPVSAELHADLALI 83
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 84 AAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFS 143
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E++ R ++R E G P+V +A
Sbjct: 144 TYATWWIRQAITRAMADQARTIRIPVHMVEQVN--RMVRVRRELSVTLGREPTVSEVATA 201
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
L + + +V ++ S DRE SL+ GE S + D +P D A
Sbjct: 202 LEIPEFQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPRTEPGDAATN 253
Query: 425 --LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
L++EV ++++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ V L
Sbjct: 254 GELRNEV-RIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLL 312
Query: 482 KLKHAARKKKMEA 494
KL+ R ++EA
Sbjct: 313 KLRDPERANRLEA 325
>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 = 171 bits (434), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 108/309 (34%), Positives = 183/309 (59%), Gaps = 18/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L ++++
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLGSTPDLDSRLAL---DLDTLVVR 122
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 123 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 182
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS + +A L++S
Sbjct: 183 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPSAEEVAAQLDLSP 242
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDE 428
++V G+V L +E SL+ GE + D + + V+ A L++
Sbjct: 243 ERV-------GEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDATSPVESAAFLLLREH 294
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 295 LDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHA 353
Query: 488 RKKKMEAML 496
++ L
Sbjct: 354 YADQLRGYL 362
>gi|358457491|ref|ZP_09167709.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357079327|gb|EHI88768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 385
Score = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 183/307 (59%), Gaps = 19/307 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LLT V L+K+I+ G+ HKL G++ R +L+++ + ++
Sbjct: 91 YLRDIGKVALLTAEGEVDLAKRIEAGV-FAAHKLATA--TGATTPRERRDLEAVEADGNI 147
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+S+A+RY + G D+VQ G +GL+R +EKFD +KGFK STY WW
Sbjct: 148 AKRRLVEANLRLVVSVAKRYVSRGMPFLDVVQEGNLGLIRAVEKFDYAKGFKFSTYATWW 207
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ +SR+L + +RT+R+P HL E + L+R + + E G PS + +A ++++ ++V
Sbjct: 208 IRQAISRSLADQARTIRIPVHLVEIINRLVRVQRQLVSELGRDPSPEELAAEMDLTPQRV 267
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 430
R ++ + RE SL+ GE ++ D +E++ P+ +++++
Sbjct: 268 R-------EILMISREPV-SLDTPIGEDASAHFGDL-IEDSDAVVPFEAATVGLFQEQLD 318
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RER+++RL YGL D T E++ G++RER+RQ+ AL KL+H +R
Sbjct: 319 A-VLRTLPDRERQVVRLRYGLTDGRPRTLEEVGHEFGVTRERIRQIESKALAKLRHPSRS 377
Query: 490 KKMEAML 496
+K+ L
Sbjct: 378 EKLHGYL 384
>gi|302342714|ref|YP_003807243.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfarculus
baarsii DSM 2075]
gi|301639327|gb|ADK84649.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfarculus
baarsii DSM 2075]
Length = 590
Score = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 110/349 (31%), Positives = 197/349 (56%), Gaps = 49/349 (14%)
Query: 187 ELIQNRLK--GYVKGVVSEEL----LTHAEVVRLSKKIKTGLSLDDHKLRLK---ERL-- 235
E+I+ RL+ + +GV++ + L ++ +L+KK++ + D+ + + +RL
Sbjct: 250 EIIRVRLRTIDHCEGVITSAMMETGLPKGDIGKLAKKVRANCACDEDMAKCRCDGQRLLA 309
Query: 236 -GSSLRISRPELQSILMECSL---------------------AREKLVMSNVRLVMSIAQ 273
SLR++R ++ + MEC + A+++LV +N+RLV+SIA+
Sbjct: 310 VDESLRVARGRIREVEMECKMGAPSLRKILDRVGKGQTLAQDAKQELVEANLRLVVSIAK 369
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
+Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+
Sbjct: 370 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRI 429
Query: 334 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + LIR ++ ++E G P+ + IAE ++ +KVR KV + +E
Sbjct: 430 PVHMIETINKLIRTSRYLVQEFGREPTPEEIAEKMDFPLEKVR-------KVLKIAKEPI 482
Query: 393 PSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLY 448
SL GE S++ D +E+ NP V L ++ K ++ TL RE +++R+
Sbjct: 483 -SLETPIGEEEDSHLGDF-IEDKKVINPADAVISLNLCEQTRK-VLATLTPREEKVLRMR 539
Query: 449 YGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+G+ K T E++ + ++RER+RQ+ AL KL+H +R KK++A +
Sbjct: 540 FGIGQKSDHTLEEVGRDFDVTRERIRQIEAKALRKLRHPSRAKKLKAFI 588
>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 = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 90/252 (35%), Positives = 156/252 (61%), Gaps = 13/252 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ + A+E+++ +N+RLV+S+A+RY N G ++ DL+Q G +GL R ++KFD +K
Sbjct: 168 ELERVQKAGIYAKEQMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVDKFDPTK 227
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + KG TPS++ +
Sbjct: 228 GYRFSTYAYWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKIAQLKGATPSIEEL 287
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
++ L MS ++R + + SL+ + G+ + + D E +P +
Sbjct: 288 SQELEMSPPQIREVLMRVPRSVSLEIKV--------GKEKDTELIDLLETTEASPEDNIA 339
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+ AL+ +++ L + L RERE+I+L YG D + + DI + + LSRERVRQ+ A+
Sbjct: 340 NEALRQDLHNL-LADLTTREREVIQLRYGFKDGKSYSLADIGRTLQLSRERVRQIEAKAI 398
Query: 481 EKLKHAARKKKM 492
+KL+ R+ ++
Sbjct: 399 QKLRQPKRRNQI 410
>gi|309791233|ref|ZP_07685765.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308226795|gb|EFO80491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 391
Score = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 110/303 (36%), Positives = 172/303 (56%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LLT + V L+K ++ G D + R+ +S R R EL+
Sbjct: 98 YLQEIGQVPLLTAEKEVELAKSMEAG---DIARQRIDREEYTSGR-ERMELERAYALGCE 153
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
+R+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K STY WW
Sbjct: 154 SRQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 213
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P+ + IAE + +S KV
Sbjct: 214 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQSMQREPTPEEIAEAMGISAGKV 273
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 274 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPSEAAAAAMLREQIEE-VL 327
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 328 QKLPERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRKLRHPHLGKKLR 387
Query: 494 AML 496
L
Sbjct: 388 GYL 390
>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 = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 183/308 (59%), Gaps = 18/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + +LL E ++L+++I L + K+ LKE+LG ++ +IS
Sbjct: 86 VRWYLQLIGKVKLLKPEEEIQLAREISQLLQWEHIKVFLKEKLGREPTALEWSAACKISD 145
Query: 244 PE-LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
+ +++L A+E+++ +N+RLV+SIA+RY N G + DLVQ G +GL+R EKFDS
Sbjct: 146 VQKFKTVLYNSRKAKERMIAANLRLVVSIAKRYSNRGMSLQDLVQEGSLGLIRATEKFDS 205
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVD 361
KGFK STY WWI+Q VSRA+ ++SRT+RLP HL++ L I + ++ E G +P+ +
Sbjct: 206 EKGFKFSTYATWWIKQSVSRAIADHSRTIRLPVHLYDTLSAIKKTTRILTIELGRSPTEE 265
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IA ++++ K+R+ ++ SL++ P N +I + + +P V+
Sbjct: 266 EIACKMDVTVDKLRSVLQSAQPTLSLEK---PIKNDGDTAQLSDFIEAD--QESPDEHVE 320
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
L+D++ +I +L RER++IR+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 321 KSMLRDDLRD-VINSLSLRERDVIRMRYGLDDGKIRTLEEIGQIFSVTRERVRQIEAKAI 379
Query: 481 EKLKHAAR 488
KL+ R
Sbjct: 380 RKLRQPYR 387
>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 = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 175/306 (57%), Gaps = 24/306 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + +K+++ + L+ ++ + G + RISR
Sbjct: 11 VRSYLREIGRVPLLTHEEEILYAKRVQRFVDLEKYRELFTKETGKEPTETQWAQAARISR 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL S + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RELHSAIASGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L + +G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQARGRDATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR E + SLD G+ + + D ++ P +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGDLLEDDGP--SPED 240
Query: 423 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+A + ++++ L +++E+I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEILMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIERE 300
Query: 479 ALEKLK 484
AL KL+
Sbjct: 301 ALSKLR 306
>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 = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 180/313 (57%), Gaps = 18/313 (5%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL------- 235
M + E+ ++ ++ Y++ + LLTH E V K+++ + L + L E+L
Sbjct: 1 MRTKEIAKDSVRSYLREIGRVPLLTHEEEVTFGKQVQHLIKLQTIRDELAEQLERQPNDA 60
Query: 236 --GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
++ ++S ELQ L E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSAAAKLSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQ 180
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
K G ++ +A L+++ K+VR E + SLD + + GE I D
Sbjct: 181 KLGRAATISELATSLDLTTKQVREYLERARQPLSLDVRVGDNQDTELGE----LIEDP-- 234
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 471
+P + +L+ ++ +L + L +++++++ L +GLD + LT I R+ +SRER
Sbjct: 235 SESPENFTLQASLRGDLERL-MADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRER 293
Query: 472 VRQVGLVALEKLK 484
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>gi|440700623|ref|ZP_20882862.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
gi|440276773|gb|ELP64993.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
Length = 421
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 108/308 (35%), Positives = 181/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KLRL L S L + +L +++
Sbjct: 125 FRQYLREIGRIPLLTAAEEVDLARRVEAGL-FAEEKLRLASDLDSQLAL---DLDRLVVL 180
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 181 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 240
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 241 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLLP 300
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 301 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 352
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 353 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 412
Query: 489 KKKMEAML 496
++ L
Sbjct: 413 ADQLRGYL 420
>gi|383782051|ref|YP_005466618.1| putative RNA polymerase sigma factor [Actinoplanes missouriensis
431]
gi|381375284|dbj|BAL92102.1| putative RNA polymerase sigma factor [Actinoplanes missouriensis
431]
Length = 282
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 108/295 (36%), Positives = 168/295 (56%), Gaps = 21/295 (7%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSN 264
+LT E V LSK+I+ GL + E+L ++ P L I+ E A+ L+ +N
Sbjct: 1 MLTAVEEVTLSKRIEAGLYAE-------EKLSAAPAELAPLLAVIVAEGKAAKNHLLEAN 53
Query: 265 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 324
+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY WWIRQ ++RA+
Sbjct: 54 LRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAM 113
Query: 325 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 383
+ +RT+R+P H+ E++ ++R + G PS+ IA +++ + +V +
Sbjct: 114 ADQARTIRIPVHMVEQVNRMVRCRRDLAVSLGREPSIAEIATAMDVPEFQVI-------E 166
Query: 384 VFSLDREAFPSLNGLPGETHHSYIADNRVE---NNPWHGVDDWALKDEVNKLIIVTLGER 440
+ S DRE SL+ GE S + D N P GV L+ EV ++++ TL ER
Sbjct: 167 LISYDREPV-SLDQAVGEDGESALGDFVAAVDPNQPGEGVAQGELRSEV-EIVLATLSER 224
Query: 441 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
E +IRL +GLD T +++ + GLSRER+RQ+ V + KL+ R ++EA
Sbjct: 225 ESAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTMLKLRDPERASRLEA 279
>gi|169630111|ref|YP_001703760.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus ATCC
19977]
gi|365870954|ref|ZP_09410495.1| RNA polymerase sigma factor SigB [Mycobacterium massiliense CCUG
48898 = JCM 15300]
gi|397679875|ref|YP_006521410.1| RNA polymerase sigma factor sigB [Mycobacterium massiliense str. GO
06]
gi|414582578|ref|ZP_11439718.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1215]
gi|418247832|ref|ZP_12874218.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus 47J26]
gi|418421133|ref|ZP_12994309.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus subsp.
bolletii BD]
gi|419709733|ref|ZP_14237201.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M93]
gi|420881197|ref|ZP_15344564.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0304]
gi|420884840|ref|ZP_15348200.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0421]
gi|420889538|ref|ZP_15352886.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0422]
gi|420897176|ref|ZP_15360515.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0708]
gi|420899659|ref|ZP_15362991.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0817]
gi|420905543|ref|ZP_15368861.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1212]
gi|420910637|ref|ZP_15373949.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-R]
gi|420917089|ref|ZP_15380393.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-S]
gi|420922254|ref|ZP_15385551.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-S]
gi|420927916|ref|ZP_15391198.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-1108]
gi|420932132|ref|ZP_15395407.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-151-0930]
gi|420938383|ref|ZP_15401652.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-152-0914]
gi|420942390|ref|ZP_15405647.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-153-0915]
gi|420946950|ref|ZP_15410200.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-154-0310]
gi|420952649|ref|ZP_15415893.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0626]
gi|420956818|ref|ZP_15420055.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0107]
gi|420961864|ref|ZP_15425089.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-1231]
gi|420967525|ref|ZP_15430729.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0810-R]
gi|420972741|ref|ZP_15435934.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0921]
gi|420978256|ref|ZP_15441434.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0212]
gi|420983641|ref|ZP_15446808.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-R]
gi|420992777|ref|ZP_15455924.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0307]
gi|420998629|ref|ZP_15461766.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-R]
gi|421003066|ref|ZP_15466190.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-S]
gi|421007918|ref|ZP_15471029.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0119-R]
gi|421013609|ref|ZP_15476690.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-R]
gi|421018559|ref|ZP_15481617.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-S]
gi|421024676|ref|ZP_15487720.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0731]
gi|421029721|ref|ZP_15492753.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-R]
gi|421035126|ref|ZP_15498146.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-S]
gi|421050031|ref|ZP_15513025.1| RNA polymerase sigma factor [Mycobacterium massiliense CCUG 48898 =
JCM 15300]
gi|169242078|emb|CAM63106.1| RNA polymerase sigma factor [Mycobacterium abscessus]
gi|353452325|gb|EHC00719.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus 47J26]
gi|363994757|gb|EHM15975.1| RNA polymerase sigma factor SigB [Mycobacterium massiliense CCUG
48898 = JCM 15300]
gi|363997600|gb|EHM18811.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus subsp.
bolletii BD]
gi|382943614|gb|EIC67928.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M93]
gi|392080603|gb|EIU06429.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0421]
gi|392086106|gb|EIU11931.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0304]
gi|392087286|gb|EIU13108.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0422]
gi|392096488|gb|EIU22283.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0708]
gi|392101006|gb|EIU26797.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0817]
gi|392103447|gb|EIU29233.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1212]
gi|392112631|gb|EIU38400.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-R]
gi|392117730|gb|EIU43498.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1215]
gi|392121229|gb|EIU46995.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-S]
gi|392132090|gb|EIU57836.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-S]
gi|392135149|gb|EIU60890.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-1108]
gi|392136891|gb|EIU62628.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-151-0930]
gi|392143898|gb|EIU69623.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-152-0914]
gi|392149817|gb|EIU75531.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-153-0915]
gi|392153980|gb|EIU79686.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-154-0310]
gi|392157961|gb|EIU83658.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0626]
gi|392165633|gb|EIU91319.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0921]
gi|392166530|gb|EIU92215.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0212]
gi|392168637|gb|EIU94315.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-R]
gi|392185561|gb|EIV11210.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0307]
gi|392186441|gb|EIV12088.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-R]
gi|392194524|gb|EIV20144.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-S]
gi|392199371|gb|EIV24981.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0119-R]
gi|392201957|gb|EIV27555.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-R]
gi|392208434|gb|EIV34008.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-S]
gi|392211473|gb|EIV37039.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0731]
gi|392224473|gb|EIV49993.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-R]
gi|392225858|gb|EIV51373.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-S]
gi|392238634|gb|EIV64127.1| RNA polymerase sigma factor [Mycobacterium massiliense CCUG 48898]
gi|392249329|gb|EIV74804.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-1231]
gi|392250032|gb|EIV75506.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0810-R]
gi|392253717|gb|EIV79185.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0107]
gi|395458140|gb|AFN63803.1| RNA polymerase sigma factor sigB [Mycobacterium massiliense str. GO
06]
Length = 323
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 114/318 (35%), Positives = 169/318 (53%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT + V L+K+I+ GL H L K+RLG + + +L I+ E +
Sbjct: 30 YLNGIGKTALLTAEDEVELAKRIEAGLYAQ-HLLDTKKRLGEA---RKKDLAVIVREGNA 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH+RLG + + EE G+ V+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQRLGREASDEELAEESGI--PVE 203
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L+ S+ V EA F D EA + N + E HS +
Sbjct: 204 KIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSAENAVIAELLHSDV-------- 255
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ
Sbjct: 256 ---------------RSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQ 300
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R +++
Sbjct: 301 IEREVMAKLRHGDRAERL 318
>gi|419716788|ref|ZP_14244183.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M94]
gi|420864424|ref|ZP_15327814.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0303]
gi|420869215|ref|ZP_15332597.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RA]
gi|420873659|ref|ZP_15337036.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RB]
gi|420987323|ref|ZP_15450479.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0206]
gi|421039706|ref|ZP_15502715.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-R]
gi|421044014|ref|ZP_15507015.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-S]
gi|382940349|gb|EIC64673.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M94]
gi|392068685|gb|EIT94532.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RA]
gi|392071399|gb|EIT97245.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0303]
gi|392072687|gb|EIT98528.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RB]
gi|392181602|gb|EIV07253.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0206]
gi|392224798|gb|EIV50317.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-R]
gi|392237866|gb|EIV63360.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-S]
Length = 323
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 114/318 (35%), Positives = 168/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT + V L+K+I+ GL H L K+RLG + + +L I+ E +
Sbjct: 30 YLNGIGKTALLTAEDEVELAKRIEAGLYAQ-HLLDTKKRLGEA---RKKDLAVIVREGNA 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH+RLG + EE G+ V+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQRLGREATDEELAEESGI--PVE 203
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L+ S+ V EA F D EA + N + E HS +
Sbjct: 204 KIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSAENAVIAELLHSDV-------- 255
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ
Sbjct: 256 ---------------RSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQ 300
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R +++
Sbjct: 301 IEREVMAKLRHGDRAERL 318
>gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12]
Length = 409
Score = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 181/308 (58%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+K + LLT E V L+K+I+ GL D KL + + S R +L++I +
Sbjct: 112 VRMYLKEIGKVPLLTAEEQVDLAKRIEAGLFASD-KLAVATKKTSPQ--MRRDLEAIERD 168
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 169 GQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 228
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+ ++++
Sbjct: 229 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAKEMDLTP 288
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEV 429
KVR ++ + +E SL GE S++ D + + VD + L E
Sbjct: 289 DKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASFILLQEQ 340
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L KL+H +R
Sbjct: 341 LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSR 400
Query: 489 KKKMEAML 496
+K+ L
Sbjct: 401 SQKLRDYL 408
>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 = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 181/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KLRL L S L +L +++
Sbjct: 94 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLTPDLDSRLAH---DLDRLVVM 149
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 150 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 209
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 210 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGREPTPEEVAAHLDLPP 269
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V G+V L +E SL+ GE + D + + V+ A L E
Sbjct: 270 ERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 321
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 322 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 381
Query: 489 KKKMEAML 496
++ L
Sbjct: 382 ADQLRGYL 389
>gi|455652448|gb|EMF31078.1| RNA polymerase sigma factor [Streptomyces gancidicus BKS 13-15]
Length = 428
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KLRL L S L +L +++
Sbjct: 132 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLTPDLDSRLAH---DLDRLVVL 187
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++GFK STY
Sbjct: 188 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGFKFSTYA 247
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +A +L +
Sbjct: 248 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPQEVAAHLELPP 307
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V G+V L +E SL+ GE + D + + V+ A L +
Sbjct: 308 ERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQH 359
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 360 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAY 419
Query: 489 KKKMEAML 496
++ L
Sbjct: 420 ADQLRGYL 427
>gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 398
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 96/267 (35%), Positives = 163/267 (61%), Gaps = 9/267 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K+R + +S EL SIL + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +
Sbjct: 135 KQRWAEQVGLSVKELDSILKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTL 194
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R ++KFD +KG++ STY YWWIRQG++R SRT+RLP H+ E+L I+ A+ ++
Sbjct: 195 GLERAVDKFDPTKGYRFSTYAYWWIRQGITRGDRTQSRTIRLPVHVTEKLNKIKKAQRQI 254
Query: 352 EE-KGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+ +G TPS+D +A+ L M+ ++VR + + + SL+ + G+ + A
Sbjct: 255 SQTQGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTELGDLLETQDA-- 312
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
+P + +L+ +++ L + L +RERE+I+L YGL D + + +I + + +SR
Sbjct: 313 ----SPEENLVRESLQRDLHNL-LTELTDREREVIQLRYGLGDGKTYSLAEIGRMLDVSR 367
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAML 496
ERVRQ+ AL+KL+ R+ M L
Sbjct: 368 ERVRQIEAKALQKLRQPKRRNIMRDYL 394
>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 = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/323 (33%), Positives = 185/323 (57%), Gaps = 25/323 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT E V L++K++ GL D+ L+E + S +S ++ +
Sbjct: 301 IDDPVRMYLKEIGKVHLLTAEEEVDLAQKMEKGLKADEQIEILREEIRSG-DLSEEDMMN 359
Query: 249 ILMECSL----------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+ + + A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +E
Sbjct: 360 LEAQIKILKNDSAVGERAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVE 419
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 357
KFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G
Sbjct: 420 KFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRE 479
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 415
PS + IA + + +VR ++ + +E SL GE S++ D + N
Sbjct: 480 PSPEEIAREMETTPDRVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDENAP 531
Query: 416 -PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 473
P LK+++N+ ++ TL ERER+++ L +GL D T E++ K ++RER+R
Sbjct: 532 VPAEAATFTLLKEQLNE-VLDTLTERERKVLILRFGLEDGRGRTLEEVGKEFNVTRERIR 590
Query: 474 QVGLVALEKLKHAARKKKMEAML 496
Q+ AL KL+H +R +K++ L
Sbjct: 591 QIEAKALRKLRHPSRSRKLKDYL 613
>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 = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 182/314 (57%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L + + + P +L
Sbjct: 110 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAVATKKTSPQMRRDL 162
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 163 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 222
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 223 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 282
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 283 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 334
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 335 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 394
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 395 LRHPSRSQKLRDYL 408
>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 = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 182/314 (57%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L + + + P +L
Sbjct: 110 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAVATKKTSPQMRRDL 162
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 163 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 222
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 223 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 282
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 283 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 334
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 335 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 394
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 395 LRHPSRSQKLRDYL 408
>gi|392944009|ref|ZP_10309651.1| RNA polymerase sigma factor, sigma-70 family [Frankia sp. QA3]
gi|392287303|gb|EIV93327.1| RNA polymerase sigma factor, sigma-70 family [Frankia sp. QA3]
Length = 392
Score = 169 bits (429), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 182/314 (57%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L + + + P +L
Sbjct: 93 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAVATKKTSPQMRRDL 145
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 146 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 205
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 206 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 265
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 266 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 317
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 318 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 377
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 378 LRHPSRSQKLRDYL 391
>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 = 169 bits (429), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 182/314 (57%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L + + + P +L
Sbjct: 110 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAVATKKTSPQMRRDL 162
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 163 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 222
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 223 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 282
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 283 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 334
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 335 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 394
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 395 LRHPSRSQKLRDYL 408
>gi|172038507|ref|YP_001805008.1| RNA polymerase sigma factor SigD [Cyanothece sp. ATCC 51142]
gi|354554149|ref|ZP_08973454.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171699961|gb|ACB52942.1| group 2 sigma-70 RNA polymerase sigma factor D [Cyanothece sp. ATCC
51142]
gi|353553828|gb|EHC23219.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 318
Score = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 179/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y+K + LLTH E + +K+++ ++L+ + + E G + ++S+
Sbjct: 11 VRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLREEIIEETGQEPTESQWAKAAKLSK 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
E +SI+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 REFRSIVESGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATVTE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDDGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++ +L + L +++E+I L +G LD + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLERL-MEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALSKLR 306
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 182/314 (57%), Gaps = 23/314 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP----EL 246
+ ++ Y+K + LLT E V L+K+I+ GL E+L + + + P +L
Sbjct: 93 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLFA-------SEKLAVATKKTSPQMRRDL 145
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+
Sbjct: 146 EAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGY 205
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+
Sbjct: 206 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEEIAK 265
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
++++ KVR ++ + +E SL GE S++ D + + VD +
Sbjct: 266 EMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDAASF 317
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L K
Sbjct: 318 ILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSK 377
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 378 LRHPSRSQKLRDYL 391
>gi|359460652|ref|ZP_09249215.1| RNA polymerase sigma factor SigD [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 179/313 (57%), Gaps = 18/313 (5%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL------- 235
M + E+ ++ ++ Y++ + LLTH E V K+++ + L + L E+L
Sbjct: 1 MRTKEIAKDSVRSYLREIGRVPLLTHEEEVTFGKQVQDLIKLQAIRDELAEQLERQPNDA 60
Query: 236 --GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
+ ++S ELQ L E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSVAAQLSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQ 180
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
K G ++ +A L+++ K+VR E + SLD + + GE I D
Sbjct: 181 KLGRAATISELATALDLTTKQVREYLERARQPLSLDVRVGDNQDTELGE----LIEDP-- 234
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 471
+P + +L+ ++ +L + L +++++++ L +GLD + LT I R+ +SRER
Sbjct: 235 SESPENFTLQASLRGDLERL-MADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRER 293
Query: 472 VRQVGLVALEKLK 484
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>gi|428205323|ref|YP_007089676.1| RNA polymerase, sigma subunit, RpsC/SigC [Chroococcidiopsis
thermalis PCC 7203]
gi|428007244|gb|AFY85807.1| RNA polymerase, sigma subunit, RpsC/SigC [Chroococcidiopsis
thermalis PCC 7203]
Length = 416
Score = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 100/270 (37%), Positives = 164/270 (60%), Gaps = 15/270 (5%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R +I+ EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +
Sbjct: 153 KRRWAEIAKITVEELEQIQNDGIHAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKL 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP+++ IA L M+ +VR + + SL+ + G+ + + D
Sbjct: 273 AQEKGRTPTIEDIALELEMTAPQVREVLLRVPRSVSLETKV--------GKEKDTELGD- 323
Query: 411 RVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIG 466
+EN+ P + AL ++ +L + L +RER++I + +GL D C + +I + +
Sbjct: 324 LLENDSISPEELLMREALHRDLQQL-LADLTDRERDVILMRFGLGDGHCYSLAEIGRALD 382
Query: 467 LSRERVRQVGLVALEKLKHAARKKKMEAML 496
LSRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 383 LSRERVRQIESKALQKLRQPKRRNRVRDYL 412
>gi|409991559|ref|ZP_11274809.1| RNA polymerase sigma factor SigD [Arthrospira platensis str.
Paraca]
gi|409937568|gb|EKN78982.1| RNA polymerase sigma factor SigD [Arthrospira platensis str.
Paraca]
Length = 319
Score = 169 bits (427), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 175/305 (57%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISR 243
++ Y++ + LLTH + + K+++ L + + L ++LG + +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 71
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 191
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 420
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 192 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTTNSPEQFA 243
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 244 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 302
Query: 480 LEKLK 484
L KL+
Sbjct: 303 LTKLR 307
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 174/303 (57%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH E + L+K+++ ++L + K L + L + +IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPLEHEWAEAAKISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ + A+EK+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELRRTMAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKQGRAATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ ++VR E + SLD + + GE +P
Sbjct: 191 LAQELELTPRQVREYLERARQPLSLDLRVGDNQDTELGELLED------TGTSPEDYATH 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L ++RE++ L +GL D + LT I R+ +SRERVRQ+ AL
Sbjct: 245 SSLQLDLEKL-MSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALS 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|358463522|ref|ZP_09173562.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357070106|gb|EHI79876.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 392
Score = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+K + LLT E V L+K+I+ GL KL R+ +LR+ +L+++ +
Sbjct: 96 VRMYLKEIGKVPLLTAEEEVDLAKRIEAGL-FAAEKLSEARRVTVALRV---DLEAVERD 151
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
++A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 152 GNVAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 211
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I + ++++
Sbjct: 212 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGKEMDLTP 271
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEV 429
KVR + + SL+ GE S++ D + + VD + L E
Sbjct: 272 DKVREIQKVSQEPVSLETPI--------GEEEDSHLGDFIEDTDAVVPVDAASFLLLQEQ 323
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L KL+H +R
Sbjct: 324 LDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHPSR 383
Query: 489 KKKMEAML 496
+K+ L
Sbjct: 384 SQKLRDYL 391
>gi|453051815|gb|EME99312.1| RNA polymerase sigma factor [Streptomyces mobaraensis NBRC 13819 =
DSM 40847]
Length = 379
Score = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 181/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L + L + +L +++
Sbjct: 83 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLSNDPDLDTCLAL---DLDRLVVL 138
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 139 GRMAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 198
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A YL++S+
Sbjct: 199 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGSEPTAEEVAAYLDLSE 258
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 259 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 310
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 311 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 370
Query: 489 KKKMEAML 496
++ L
Sbjct: 371 ADQLRGYL 378
>gi|209524631|ref|ZP_03273179.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|423064274|ref|ZP_17053064.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|209495089|gb|EDZ95396.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|406713517|gb|EKD08685.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 331
Score = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 175/305 (57%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISR 243
++ Y++ + LLTH + + K+++ L + + L ++LG + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 83
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 420
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTSNSPEQFA 255
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 480 LEKLK 484
L KL+
Sbjct: 315 LTKLR 319
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 110/309 (35%), Positives = 177/309 (57%), Gaps = 19/309 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTG--LSLDDHKLRLKERLGS---------SLRI 241
++ Y++ + +LLT +E V LS+KI+ L L+ K L+ +G ++ +
Sbjct: 276 VRAYLRDIGKTKLLTASEEVALSRKIQARDLLVLEKVKSDLQREIGREPSIGEWSRAVGM 335
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
+ + + E +++K+V SN+RLV+SI + Y G + DL+Q G +GL+RG EKFD
Sbjct: 336 EQNAFELRVKEGRYSKDKMVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSMGLIRGAEKFD 395
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSV 360
KGFK STY +WWIRQ V+RA+ + SR +RLP HL+E + I A K+ ++E G P
Sbjct: 396 PDKGFKFSTYAHWWIRQAVTRAIADQSRIIRLPIHLYEVISRINKAKKMLIQEHGRQPRD 455
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
+ +AE + MS +K++ ++ S+DR + GE IAD VE +P +
Sbjct: 456 EEVAELVGMSVEKLKFIVKSAKTPSSMDRLIGKEKDQSIGE----MIADKDVE-SPEDDL 510
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
LK +V+ ++ TL RERE++RL +GLD + T E+I ++RER+RQ+ A
Sbjct: 511 IRQVLKQDVDG-VLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKA 569
Query: 480 LEKLKHAAR 488
+ KL+ +R
Sbjct: 570 MRKLRQPSR 578
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 99/256 (38%), Positives = 151/256 (58%), Gaps = 8/256 (3%)
Query: 243 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
R EL+ + + AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD
Sbjct: 131 RFELERAVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDY 190
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 361
KG K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ RL++ P+ +
Sbjct: 191 KKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPE 250
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
IA+ + +S KVR EA SL+ G G+ +I D+R+ + P
Sbjct: 251 EIADAMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAA 305
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
L++++ + +++ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL
Sbjct: 306 ASLLREQLEE-VLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVAL 364
Query: 481 EKLKHAARKKKMEAML 496
KL+H KK+ L
Sbjct: 365 RKLRHPHLGKKLRGYL 380
>gi|441180909|ref|ZP_20970215.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
gi|440614305|gb|ELQ77593.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
Length = 398
Score = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT E V L+++++ GL + KLRL L S L + +L +++
Sbjct: 102 FRQYLREIGRIPLLTAVEEVELARRVEAGL-FAEEKLRLAPDLDSQLAL---DLDKLVVL 157
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 158 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 217
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A L++
Sbjct: 218 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEEVAAQLDLPP 277
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 278 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 329
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 330 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 389
Query: 489 KKKMEAML 496
++ L
Sbjct: 390 ADQLRGYL 397
>gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba]
Length = 575
Score = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 122/381 (32%), Positives = 208/381 (54%), Gaps = 24/381 (6%)
Query: 135 SPSKKTH-KKVPVTCSGVSARQ-----RRLNSKKKILSQNKSILQQNGSKQLRSMISPEL 188
+P++K +K+ V+ + S RQ RR+ +K S +S ++ S + + + S E+
Sbjct: 195 TPAEKQEVEKLSVSSAVRSTRQTERKARRVKGLEKTASGMQSSVKTGSSSRKKRVASQEI 254
Query: 189 IQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SS 238
N Y++ S +LLT E +LS+ I+ L L+ + L ER G S+
Sbjct: 255 DHNDPLRYLRMTTSSSKLLTAREEQQLSEGIQDLLKLERLQAELTERCGHQPTFSQWASA 314
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+ + L+ + + +++++ SN+RLV+SIA+ Y G D DLVQ G GL+RG E
Sbjct: 315 AGVDKKTLRKRITHGTQCKDRMIKSNIRLVISIAKNYQGAGMDFQDLVQEGCRGLVRGAE 374
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVT 357
KFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E ++ A+ +L E G
Sbjct: 375 KFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKQ 434
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 417
P + +AE +S K++ + SLD++ +LN P E IAD E +
Sbjct: 435 PKNEEVAEATGLSMKRLMAVLLSPKPPRSLDQKIGINLNLKPSEV----IADPEAETSED 490
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
+ + ++ +++K ++ +L RE+++IR +G+ D T ++I + +G+SRERVRQ+
Sbjct: 491 ILMKQF-MRQDLDK-VLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQID 548
Query: 477 LVALEKLKHAARKKKMEAMLV 497
A KLK+ R ++ LV
Sbjct: 549 TSAFRKLKNKKRNSHLQQYLV 569
>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 = 168 bits (426), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 105/310 (33%), Positives = 176/310 (56%), Gaps = 23/310 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQSI 249
++ Y++G+ +LLT A+ V LS++I+ GL +L + +S R +L+ +
Sbjct: 35 VRAYLQGIGRTKLLTAAQEVELSRRIEAGLFA-------ATKLATCTPVSVALRADLELV 87
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 88 AAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFS 147
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + +RT+R+P H+ E++ ++R + G P+V +A L+
Sbjct: 148 TYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRTRRELSVSLGREPTVAEVARTLD 207
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDE 428
+ + +V ++ S DRE SL+ GE S + D + G DD E
Sbjct: 208 IPEIQVI-------ELISYDREPV-SLDQTVGEDGESPLGDFVAAVDSTAGTDDTVSGGE 259
Query: 429 VNKL---IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+ + ++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ L KL+
Sbjct: 260 LRQEMCGVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLHKLR 319
Query: 485 HAARKKKMEA 494
R +++EA
Sbjct: 320 APERAQRLEA 329
>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 = 168 bits (425), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 178/307 (57%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+ G+ +LLT A+ V LS++I+ GL + KL + ++LR +L+ + +E
Sbjct: 31 VRAYLYGIGKTKLLTAAQEVELSRRIEAGL-FAEAKLAACTPVSATLR---ADLELVAVE 86
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 87 GRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 146
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + SRT+R+P H+ E++ ++R + G P+V +A L++ +
Sbjct: 147 TWWIRQAITRAMADQSRTIRIPVHMVEQVNRMVRTRRDLSVSLGREPTVTEVARALDVPE 206
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN- 430
+ I ++ S DRE SL+ GE S + D N D+ A + E+
Sbjct: 207 VQ-------IIELISYDREPV-SLDQAVGEDGESPLGDFVAVVNATAAPDNTAERGELRQ 258
Query: 431 --KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+ ++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ L KL+
Sbjct: 259 EVRGVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKGTLRKLRAPE 318
Query: 488 RKKKMEA 494
R +++ A
Sbjct: 319 RAQRLAA 325
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 112/308 (36%), Positives = 181/308 (58%), Gaps = 20/308 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+K + LLT E V L+K+I+ GL KL R +S R+ R +L++I + +
Sbjct: 107 YLKAIGRVRLLTAEEEVDLAKRIEAGL-FASEKLAAIRR--TSPRLRR-DLEAIEQDGQI 162
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ KLV +N+RLV+SIA+RY G + DL+Q G +GL+R +EKFD +KG+K STY WW
Sbjct: 163 AKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 222
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RA+ + RT+R+P H+ E + + R + L++ G PS + IA ++++ +V
Sbjct: 223 IRQAVTRAIADQGRTIRIPVHMVETINKVTRIQRQLLQDLGREPSPEEIATQVDLAPHRV 282
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 430
E I KV + +L GE S + D +E+N P+ L+++++
Sbjct: 283 ----EEILKVG----QTPVALETPIGEEQDSQLGDF-IEDNDAIVPFEAASFVLLQEQID 333
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL ERE+++I+L +GL D + T E + + G++RER+RQ+ L KL H AR
Sbjct: 334 S-VLHTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIESRTLAKLSHPARS 392
Query: 490 KKMEAMLV 497
+++ LV
Sbjct: 393 QRLRDYLV 400
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 99 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 158
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 159 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 218
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L++++N
Sbjct: 219 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLN 270
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 271 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 329
Query: 490 KKMEAML 496
K+++ +
Sbjct: 330 KQLKDFM 336
>gi|425458944|ref|ZP_18838430.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9808]
gi|389823431|emb|CCI28324.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9808]
Length = 318
Score = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 108/320 (33%), Positives = 187/320 (58%), Gaps = 28/320 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + G+ + + + + +P +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKV--------GDNQDTELGE--LLEDPGLSPED 240
Query: 423 W----ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 477
+ +L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+
Sbjct: 241 YTAYSSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIER 299
Query: 478 VALEKLKHAARKKKMEAMLV 497
A+ KL+ RK K+ L
Sbjct: 300 EAIAKLRK--RKAKIREYLA 317
>gi|427735339|ref|YP_007054883.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427370380|gb|AFY54336.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 339
Score = 168 bits (425), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 108/317 (34%), Positives = 178/317 (56%), Gaps = 34/317 (10%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECS 254
Y + ++ LLT E + L+KK++ +SL L +KE L L+ +P LQ +
Sbjct: 34 SYFQDIICIPLLTSEEEINLAKKVQQRMSL----LAIKEELSKKLQ-RQPTLQEWSDKAQ 88
Query: 255 L--------------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
L A++K++ +N+RLV++IA++Y D DL+Q G +GL R ++KF
Sbjct: 89 LNDTELLEQIDRGQRAKQKMIAANLRLVVTIAKKYQKRNLDFLDLIQEGTLGLERAVDKF 148
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 359
+ G+K STY YWWIRQG++RA+ + SRT+RLP H+ E+L I+ + L +K G PS
Sbjct: 149 QPALGYKFSTYAYWWIRQGITRAISQQSRTIRLPIHITEKLNKIKRVQRELSQKLGRNPS 208
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
V IAE + + ++R+ K SLD GE ++ + D +E+N +
Sbjct: 209 VTEIAEVMEVKPSQIRDYLSLARKPMSLDVRV--------GEEQNTDLKD-LLEDNSFSP 259
Query: 420 VDDWALKDEVNKLI---IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+D+ LK+ +N+ I + L +++EI+ L YGL D + LT +S+R+G+SR+RV Q+
Sbjct: 260 -EDYVLKESLNQTIKDLLSKLSPQQQEILTLRYGLEDGQELTLNQVSQRMGISRQRVLQL 318
Query: 476 GLVALEKLKHAARKKKM 492
AL L+ +K ++
Sbjct: 319 QRQALAFLQRYGKKSRI 335
>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 = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 185/314 (58%), Gaps = 17/314 (5%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP-ELQ 247
I++ ++ Y+K + LLT + + L++ ++ G D K ++ + L +R EL
Sbjct: 218 IEDPVRMYLKEIGKVPLLTADQEIDLAQAMEAGA--DAEKELADDKDVNKLSDARKKELN 275
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
+I+ E A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 276 AIIYEGEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDFRKGFK 335
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEY 366
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + +A+
Sbjct: 336 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEVAKE 395
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDW 423
+NM ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 396 MNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFT 447
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ + ++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL K
Sbjct: 448 LLKEQLVE-VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRK 506
Query: 483 LKHAARKKKMEAML 496
L+H +R +K++ L
Sbjct: 507 LRHPSRSRKLKDYL 520
>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 = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 96/243 (39%), Positives = 147/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K STY WW
Sbjct: 162 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 221
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP H+ E + ++ A +L++ P+ + IA+ + +S KV
Sbjct: 222 IRQAITRAIADQSRTIRLPVHMGEAISQVKRASHKLQQMMQREPTPEEIADAMGISSTKV 281
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 282 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASMLREQLEE-VL 335
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 336 QKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRHPHLGKKLR 395
Query: 494 AML 496
L
Sbjct: 396 GYL 398
>gi|425471805|ref|ZP_18850656.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9701]
gi|389882237|emb|CCI37274.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9701]
Length = 318
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 179/303 (59%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LLTH E + +K+++ + L+ K LK +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|357237237|ref|ZP_09124580.1| RNA polymerase sigma factor RpoD [Streptococcus criceti HS-6]
gi|356885219|gb|EHI75419.1| RNA polymerase sigma factor RpoD [Streptococcus criceti HS-6]
Length = 369
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 153/247 (61%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L++++N
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLN 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 D-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKMEAML 496
K+++ +
Sbjct: 361 KQLKDFM 367
>gi|376005594|ref|ZP_09783057.1| group 2 RNA polymerase sigma factor SigD (RpoD family) [Arthrospira
sp. PCC 8005]
gi|375326028|emb|CCE18810.1| group 2 RNA polymerase sigma factor SigD (RpoD family) [Arthrospira
sp. PCC 8005]
Length = 331
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 175/305 (57%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISR 243
++ Y++ + LLTH + + K+++ L + + L ++LG + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 83
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 420
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTSNSPDEFA 255
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 480 LEKLK 484
L KL+
Sbjct: 315 LTKLR 319
>gi|357021635|ref|ZP_09083866.1| RNA polymerase sigma factor SigB [Mycobacterium thermoresistibile
ATCC 19527]
gi|356479383|gb|EHI12520.1| RNA polymerase sigma factor SigB [Mycobacterium thermoresistibile
ATCC 19527]
Length = 319
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 113/318 (35%), Positives = 171/318 (53%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL AE V L+K+I+ GL H L+ K+RLG + + +L++I+ +
Sbjct: 26 YLNGIGKTALLDAAEEVELAKRIEAGLYAQ-HLLKTKKRLGQN---RKRDLEAIVRDGEE 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL--------------EEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL E++ + K L EE G+ V+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQTLGREPTDEELAEESGI--PVE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L+ S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 297 IEREVMAKLRHGERADRL 314
>gi|1519636|gb|AAB07551.1| SigA [Chloroflexus aurantiacus J-10-fl]
Length = 343
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 100/258 (38%), Positives = 154/258 (59%), Gaps = 12/258 (4%)
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
+R EL+ + + AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD
Sbjct: 92 ARFELERAVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFD 151
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTP 358
KG K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ RL+ ++ TP
Sbjct: 152 YKKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQRDATP 211
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 418
+ IA+ + +S KVR EA SL+ G G+ +I D+R+ + P
Sbjct: 212 --EEIADAMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAE 264
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
L++++ + +++ L ERER+II+L YGL D T E++ G++RER+RQ+
Sbjct: 265 APAASLLREQLEE-VLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEA 323
Query: 478 VALEKLKHAARKKKMEAM 495
VAL KL+H KK+ A+
Sbjct: 324 VALRKLRHPHLGKKLRAI 341
>gi|451343899|ref|ZP_21912965.1| RNA polymerase sigma factor RpoD [Eggerthia catenaformis OT 569 =
DSM 20559]
gi|449337474|gb|EMD16636.1| RNA polymerase sigma factor RpoD [Eggerthia catenaformis OT 569 =
DSM 20559]
Length = 410
Score = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 116/332 (34%), Positives = 189/332 (56%), Gaps = 53/332 (15%)
Query: 173 QQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK 232
+++ S QL S + I + +K Y+K + + +LLT + V L+ KIK G DD+
Sbjct: 122 KEDDSDQLGSNVK---INDPVKMYLKEIGTVDLLTQEQEVELAMKIKDG---DDN----- 170
Query: 233 ERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
A+++L +N+RLV+SIA+RY G DL+Q G +G
Sbjct: 171 -----------------------AKKRLAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMG 207
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRL 351
L++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + +
Sbjct: 208 LIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLI 267
Query: 352 EEKGVTPSVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD 409
+E G P+ + IA+ + M+ +KVR+ I K+ SL+ P SL GE S++ D
Sbjct: 268 QELGREPTAEEIADKMEGMTPEKVRD----IQKI-SLE----PVSLETPIGEEDDSHLGD 318
Query: 410 NRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKR 464
+E+ DD+A LKDE+N+ +++ L +RE +++RL +G+D T E++ K
Sbjct: 319 -FLEDEGAMSPDDYASNELLKDELNE-VLLELTDREEKVLRLRFGIDDGRTRTLEEVGKE 376
Query: 465 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++RER+RQ+ AL KLKH +R K+++ L
Sbjct: 377 FNVTRERIRQIEAKALRKLKHPSRSKRLKDFL 408
>gi|427722866|ref|YP_007070143.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7376]
gi|427354586|gb|AFY37309.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7376]
Length = 396
Score = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 98/284 (34%), Positives = 171/284 (60%), Gaps = 18/284 (6%)
Query: 222 LSLDDHKLRLKERLG-----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYD 276
+ LD LR K R G + + + E++++L + A+E ++ +N+RLV+S+A++Y
Sbjct: 118 VDLDREVLRQKIREGKQHWAACVDLDIKEIEAVLKAGAKAKEHMIQANLRLVVSVAKKYQ 177
Query: 277 NMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNH 336
N G ++ DL+Q G +GL R ++KFD +KG++ STY YWWIRQG++RA+ SRT+RLP H
Sbjct: 178 NRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVH 237
Query: 337 LHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSL 395
+ E+L I+ A+ ++ + +G TPS++ +A+ LNM+ +VR + + + SL+
Sbjct: 238 VTEKLNKIKKAQRQISQTQGCTPSLEDVAKVLNMTAAQVREVLQKVPRSVSLEIRV---- 293
Query: 396 NGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK 453
G+ + + D + +P + +L+ ++ L + L +RE+E+I+L YGLD
Sbjct: 294 ----GQDRDTELGDLLETKDASPEENLVRESLQRDLRNL-LAELTDREQEVIQLRYGLDD 348
Query: 454 -ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ + +I + + LSRERVRQ+ AL+KL+ R+ M L
Sbjct: 349 GKTHSLAEIGRVLELSRERVRQIEAKALQKLRQPKRRNLMRDYL 392
>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|365831272|ref|ZP_09372824.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. 3_3_56FAA]
gi|374624945|ref|ZP_09697362.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. 8_2_54BFAA]
gi|167704591|gb|EDS19170.1| RNA polymerase sigma factor RpoD [Clostridium ramosum DSM 1402]
gi|229382630|gb|EEO32721.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. D7]
gi|365261749|gb|EHM91650.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. 3_3_56FAA]
gi|373916228|gb|EHQ47976.1| RNA polymerase sigma factor rpoD [Coprobacillus sp. 8_2_54BFAA]
Length = 417
Score = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 115/316 (36%), Positives = 178/316 (56%), Gaps = 50/316 (15%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + +K Y+K + ELLTH E + L+KKI G
Sbjct: 142 INDPVKMYLKEIGRVELLTHDEEIDLAKKILEG--------------------------- 174
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 175 ----DEDAKKELAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKF 230
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + ++E G PS + IAE +
Sbjct: 231 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLIQELGREPSAEEIAEKM 290
Query: 368 N-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA- 424
+ M+ +KVR I K+ SL+ P SL GE S++ D +E+ DD+A
Sbjct: 291 DGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHLGD-FIEDEGAMSPDDYAA 340
Query: 425 ---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
LKDE+N+ +++ L +RE +++RL +GLD T E++ K ++RER+RQ+ AL
Sbjct: 341 NELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVGKEFSVTRERIRQIEAKAL 399
Query: 481 EKLKHAARKKKMEAML 496
KLKH +R K+++ L
Sbjct: 400 RKLKHPSRSKRLKDFL 415
>gi|16330303|ref|NP_441031.1| RNA polymerase sigma factor SigD [Synechocystis sp. PCC 6803]
gi|383322044|ref|YP_005382897.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383325213|ref|YP_005386066.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383491097|ref|YP_005408773.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384436364|ref|YP_005651088.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451814461|ref|YP_007450913.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|1652792|dbj|BAA17711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339273396|dbj|BAK49883.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359271363|dbj|BAL28882.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359274533|dbj|BAL32051.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359277703|dbj|BAL35220.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|407958220|dbj|BAM51460.1| RNA polymerase sigma factor SigD [Bacillus subtilis BEST7613]
gi|451780430|gb|AGF51399.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 318
Score = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 108/310 (34%), Positives = 178/310 (57%), Gaps = 27/310 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE----------RLGSSLR 240
+ ++ Y++ + LLTH E + +K+I+ +SL++ K L E +
Sbjct: 8 DSVRAYLREIGRVPLLTHEEEIVYAKQIQQVVSLNEIKKSLAEGKDGEPVSPSEWAKAAD 67
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL+ + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKF
Sbjct: 68 LSIRELEKAIKEGERAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D +KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +EKG S
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAAS 187
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ +AE+L ++ K+VR E SLD G+ + + D ++ P
Sbjct: 188 IAELAEHLELTPKQVREYLERSRHPLSLDLRV--------GDNQDTELGDLLEDDGPLP- 238
Query: 420 VDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
+D+A L+ +++ L + L ++RE++ L +GL D + LT I + +SRERVRQ
Sbjct: 239 -EDFATYASLQLDLDSL-MAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISRERVRQ 296
Query: 475 VGLVALEKLK 484
+ AL KL+
Sbjct: 297 IEREALNKLR 306
>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 = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 179/303 (59%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LLTH E + +K+++ + L+ K LK +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKVKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis]
Length = 592
Score = 167 bits (424), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 173/306 (56%), Gaps = 17/306 (5%)
Query: 202 SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------PELQSILMECSL 255
S LLT +E V LS+ I+ + LD + + KE+ G +++ + +++ M +
Sbjct: 291 SSRLLTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEV 350
Query: 256 ARE---KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
R+ K++ N+RLV+S+A+ Y N G + DL+Q G +GL+R EKFD S+GFK STY
Sbjct: 351 GRDSFDKIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYA 410
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRIAEYLNMSQ 371
YWWIRQ +++AL E SRT+RLP H+ E + IR A +L +E P+ + +AE +S
Sbjct: 411 YWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISM 470
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK 431
++R+ T SLDR ++ E +AD E+ V K ++++
Sbjct: 471 TRLRHVTRCSRVPTSLDRCVGKDMD----EKFSEIVADTNSESTE-TIVSKELFKKDLDR 525
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL RE++++RL YGLD + + ++ + LSRERVRQ+ + A+ KL+ R +
Sbjct: 526 -VLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQ 584
Query: 491 KMEAML 496
++ L
Sbjct: 585 HLKHYL 590
>gi|411117153|ref|ZP_11389640.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoriales
cyanobacterium JSC-12]
gi|410713256|gb|EKQ70757.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoriales
cyanobacterium JSC-12]
Length = 414
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 94/261 (36%), Positives = 163/261 (62%), Gaps = 13/261 (4%)
Query: 240 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
++S EL++I ME A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EK
Sbjct: 159 KLSVEELETIQMEGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 218
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTP 358
FD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG T
Sbjct: 219 FDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTA 278
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNP 416
+++ IA+ L+M+ +VR + + SL+ + G+ + + D + P
Sbjct: 279 TMEDIAKELDMTPPQVREVLLRVPRSVSLETKV--------GKEKDTELGDLLETDDITP 330
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+ AL+ ++ +L + L RER++I++ +GL D + + +I + + LSRERVRQ+
Sbjct: 331 EDTLMREALRRDLQQL-LADLTSRERDVIQMRFGLGDGQPYSLAEIGRALDLSRERVRQI 389
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 390 EAKALQKLRQPKRRNRVRDYL 410
>gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium]
Length = 591
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 110/327 (33%), Positives = 180/327 (55%), Gaps = 27/327 (8%)
Query: 187 ELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR--- 243
E + ++ Y++ + +LL E + LSK++ + L+ + +E G S S
Sbjct: 272 EAKDDTIRSYLREIGRYQLLHPGEEIELSKQVCILMDLEQFQRSFREEHGKSPTESEWAQ 331
Query: 244 --------PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
+L+ + + A+E++V +N+RLV+SIA+RY N G + DL+Q G IGL+R
Sbjct: 332 GCGYGDDVEKLREHIRDGRKAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIR 391
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EK 354
G+EKFD+ +GF+ STY WWIRQ ++RA+ ++SR++RLP H+H+ + LIR L+ E
Sbjct: 392 GVEKFDAERGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISLIRKQTKALQVEL 451
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH---HSYIA-DN 410
G PS + I E + + + K R E + SL+ P +G + H S IA +
Sbjct: 452 GRPPSEEEICESVGIDRAKYRLVMECSRNIVSLE---TPLRSG--DDVHFLGESLIAPEE 506
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
R E N L++ + K ++ L RERE+IR+ +GL D T E++ R ++R
Sbjct: 507 RAEENCSRDT----LRESIEK-VLHCLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTR 561
Query: 470 ERVRQVGLVALEKLKHAARKKKMEAML 496
ER+RQ+ AL+KL+ A ++ L
Sbjct: 562 ERIRQIESKALKKLRTPAENNFLDEYL 588
>gi|443316869|ref|ZP_21046297.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783541|gb|ELR93453.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 443
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 94/257 (36%), Positives = 160/257 (62%), Gaps = 15/257 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ + E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 193 ELEEAIREGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 252
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +++G TP++D +
Sbjct: 253 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQDQGRTPTLDDV 312
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGV 420
A L+M+ +VR + + SL+ + G+ + + D +E + P +
Sbjct: 313 ARELDMTAAQVREVLLRVPRSVSLETKV--------GKERDTELGD-LLETDSISPEELL 363
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
AL+ ++ +L + L +RERE+IRL +GL D + +I + + LSRERVRQ+ A
Sbjct: 364 MREALRRDLQQL-MADLTDREREVIRLRFGLGDGNPFSLAEIGRALDLSRERVRQIESKA 422
Query: 480 LEKLKHAARKKKMEAML 496
L+KL+ R+ ++ L
Sbjct: 423 LQKLRQPKRRNRVRDYL 439
>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 = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 180/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LLTH E + +K+++ ++L+ K L E LG + ++++
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKRVQRFVALETLKESLTEELGQEPTIAQWAKAAKMTQ 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+S + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELRSAIEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +EKG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L ++ ++VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELELTPRQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDTGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++++L + L +++E++ L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATHSSLQLDLDRL-MEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALAKLR 306
>gi|427717250|ref|YP_007065244.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
7507]
gi|427349686|gb|AFY32410.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
7507]
Length = 318
Score = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 178/308 (57%), Gaps = 24/308 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + K+++ +L + + L +LG ++ ++
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEAREYLAAQLGRQPTLEEWATTAKLES 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL I+ + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 TELNDIIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSAGE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L ++ K+VR E SLD G+ + + + + + +P ++
Sbjct: 191 LAEELELTTKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPEE 240
Query: 423 WALKDEVNKLIIVTLGE---REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ ++ ++ + +GE +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 241 FVMQSSLSLDLERLMGELTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 300
Query: 479 ALEKLKHA 486
AL KL+ +
Sbjct: 301 ALTKLRKS 308
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 157/256 (61%), Gaps = 13/256 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ + E A++ ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +K
Sbjct: 148 ELKQVCKEGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 207
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +++ I
Sbjct: 208 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRKIAQTKGRTANLEEI 267
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A+ L M+ +VR + K SL+ G+ + + D + P +
Sbjct: 268 AQELEMTPDQVREVLLRVPKSISLETRV--------GKEKDTELGDLLETTDFTPEERLT 319
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+L +++ +L++ L RER++IR+ +GL D + + +I + + LSRERVRQ+ AL
Sbjct: 320 QESLSNDLQRLLL-ELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKAL 378
Query: 481 EKLKHAARKKKMEAML 496
+KL+H R+ ++ L
Sbjct: 379 QKLRHPRRRNQIRDYL 394
>gi|257126628|ref|YP_003164742.1| RpoD subfamily RNA polymerase sigma-70 subunit [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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 89/240 (37%), Positives = 151/240 (62%), Gaps = 8/240 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGFK STY WW
Sbjct: 155 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 214
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +AE L + +KV
Sbjct: 215 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAEKLELPVEKV 274
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
++ E SL+ + G+ ++ D++ NP+ LK+++++ ++
Sbjct: 275 KSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-ANPYDATTRILLKEQLDE-VL 328
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 329 KTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLE 388
>gi|335429392|ref|ZP_08556290.1| RNA polymerase sigma factor RpoD [Haloplasma contractile SSD-17B]
gi|334889402|gb|EGM27687.1| RNA polymerase sigma factor RpoD [Haloplasma contractile SSD-17B]
Length = 398
Score = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 180/309 (58%), Gaps = 15/309 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + ELL+ E +R +K I+ GL D+ LK R +L+
Sbjct: 94 INDPVRMYLKEIGKVELLSADEEIRYAKDIEAGLMADEQIKDLKAEDALDADTER-QLKD 152
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
++M+ +++ +LV +N+RLV+SIA+R+ G DL+Q G +GL++ ++KFD +G+K
Sbjct: 153 LIMKGEISKMRLVEANLRLVVSIAKRHVGRGMLFLDLIQEGNMGLMKAVDKFDYRRGYKF 212
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + +E G P + IA+ +
Sbjct: 213 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRQLTQELGRDPLPEEIAKKM 272
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN---NPWHGVDDWA 424
+++ KVR ++ + ++ SL GE S + D ++ +P +
Sbjct: 273 DITPDKVR-------EILKISQDPI-SLESPVGEEDDSNLGDFIPDSETISPAEFASNEL 324
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK E+N+ ++ TL +RE ++RL +GL D T E++ K G++RER+RQ+ AL KL
Sbjct: 325 LKQELNE-VLETLTDREERVLRLRFGLNDGRTRTLEEVGKEFGVTRERIRQIEAKALRKL 383
Query: 484 KHAARKKKM 492
+H +R KK+
Sbjct: 384 RHPSRSKKL 392
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT E V L+++++ GL + KL L S L + +L +++
Sbjct: 132 FRQYLREIGRIPLLTAVEEVELARRVEAGL-FAEEKLSSTPDLDSQLAL---DLDRLVVL 187
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 188 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 247
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 248 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDL-- 305
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
A E + +V L +E SL+ GE + D + + V+ A L E
Sbjct: 306 -----APERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 359
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 360 LEAVLSTLGERERKVVQLRYGLADGRARTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 419
Query: 489 KKKMEAML 496
++ L
Sbjct: 420 ADQLRGYL 427
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 108/311 (34%), Positives = 176/311 (56%), Gaps = 14/311 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK-ERLGSSLRISRPELQ 247
+ + ++ Y++ + LL+ + V L+K ++ G H+ R ER S R +
Sbjct: 102 LDDPVRMYLQEIGQVPLLSAEQEVMLAKAMEAG-----HRARRALEREEYSSWQERVMYE 156
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
+ + + AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K
Sbjct: 157 QQVAQGNEARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHK 216
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEY 366
STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P+ + IA+
Sbjct: 217 FSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREPTPEEIADA 276
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALK 426
+ +S KVR EA SL+ G G+ +I D+R+ + P L+
Sbjct: 277 MGISSTKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASMLR 331
Query: 427 DEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
+++ + ++ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H
Sbjct: 332 EQLEE-VLQKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRH 390
Query: 486 AARKKKMEAML 496
KK+ L
Sbjct: 391 PHLGKKLRGYL 401
>gi|427709357|ref|YP_007051734.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427361862|gb|AFY44584.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 332
Score = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 175/307 (57%), Gaps = 22/307 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-----------SSLRI 241
++ Y++ + LLTH E +R K+++ +L + + L +LG S L I
Sbjct: 25 VRTYLREIGRVPLLTHEEEIRYGKQVQRSTALQEVRESLASQLGREPTLEEWAKESKLDI 84
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
+ +L + + +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 85 A--DLNDAIADGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFD 142
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G PSV
Sbjct: 143 PTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSV 202
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
+A L+++ K+VR E SLD + + GE A +P V
Sbjct: 203 GELATELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA------SPEEFV 256
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
+L ++ + ++ L ++RE+I L +GL D + LT I + + +SRERVRQ+ A
Sbjct: 257 MQTSLSSDLER-VMEELTPQQREVITLRFGLIDGQALTLARIGEILNISRERVRQIEREA 315
Query: 480 LEKLKHA 486
L KL+ +
Sbjct: 316 LNKLRKS 322
>gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis
NIES-39]
Length = 331
Score = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 174/305 (57%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISR 243
++ Y++ + LLTH + + K+++ L + + L ++L + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLAYEPTEAQWAELVNLSV 83
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 420
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTTNSPEQFA 255
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 480 LEKLK 484
L KL+
Sbjct: 315 LTKLR 319
>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 = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 96/257 (37%), Positives = 148/257 (57%), Gaps = 14/257 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
E+ E A+ KL N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +
Sbjct: 340 EMNERFKEYEKAKRKLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEWRR 399
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + +RN K L+EKG P+++
Sbjct: 400 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVNKKLLQEKGREPTIEET 459
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGV 420
A N+S ++ R + SLDR GE+ SY D + NP +
Sbjct: 460 ARAANISIEETRRVMKISRHPISLDRPV--------GESEDSYFGDFIEDTTAENPINSA 511
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
LKD++++ ++ TL REREII+L YGL D T E++ + ++RERVRQ+ A
Sbjct: 512 TQEMLKDKIDQ-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKA 570
Query: 480 LEKLKHAARKKKMEAML 496
+ KL+H R +++E L
Sbjct: 571 VRKLQHPVRSRQLEGFL 587
>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 = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 89/240 (37%), Positives = 151/240 (62%), Gaps = 8/240 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGFK STY WW
Sbjct: 155 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 214
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +AE L + +KV
Sbjct: 215 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAEKLELPVEKV 274
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
++ E SL+ + G+ ++ D++ NP+ LK+++++ ++
Sbjct: 275 KSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-ANPYDATTRVLLKEQLDE-VL 328
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 329 KTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLE 388
>gi|443668768|ref|ZP_21134260.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa
DIANCHI905]
gi|159026170|emb|CAO88820.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
gi|443330730|gb|ELS45425.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa
DIANCHI905]
Length = 318
Score = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 109/316 (34%), Positives = 185/316 (58%), Gaps = 20/316 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +P
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGL--SPEDYTAH 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 245 SSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLKHAARKKKMEAMLV 497
KL+ RK K+ L
Sbjct: 304 KLRK--RKAKIREYLA 317
>gi|9837536|gb|AAG00589.1|AF288784_1 SigC [Synechococcus elongatus PCC 7942]
Length = 398
Score = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 157/256 (61%), Gaps = 13/256 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ + E A++ ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +K
Sbjct: 148 ELKQVCKEGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 207
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +++ I
Sbjct: 208 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLTRIKKAQRKIAQTKGRTANLEEI 267
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A+ L M+ +VR + K SL+ G+ + + D + P +
Sbjct: 268 AQELEMTPDQVREVLLRVPKSISLETRV--------GKEKDTELGDLLETTDFTPEERLT 319
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+L +++ +L++ L RER++IR+ +GL D + + +I + + LSRERVRQ+ AL
Sbjct: 320 QESLSNDLQRLLL-ELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKAL 378
Query: 481 EKLKHAARKKKMEAML 496
+KL+H R+ ++ L
Sbjct: 379 QKLRHPRRRNQIRDYL 394
>gi|427723688|ref|YP_007070965.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427355408|gb|AFY38131.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 318
Score = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 186/318 (58%), Gaps = 34/318 (10%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y+K + LLTH E V S++++ ++L+ K L E + +I++
Sbjct: 11 VRSYLKEIGRVPLLTHEEEVVYSRRVQQMVALEKLKAELTEHQEDEPTLKEWAKAAKITQ 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ + + A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELKKRMSIGAQAKQKMVEANLRLVVSVAKKYIKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKNGRAATIPE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV-- 420
+AE L+++ K+VR+ E + SLD G+ + + + +E HG
Sbjct: 191 LAEELDLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTEL----IELLEDHGTTP 238
Query: 421 DDW----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
DD+ ALK +++++ I L +++E++ L +GL D + T I + + +SRERVRQ+
Sbjct: 239 DDFATSAALKRDLHRM-ISDLTAQQQEVLTLRFGLNDGQPHTLAKIGEHLSISRERVRQI 297
Query: 476 GLVALEKLKHAARKKKME 493
AL KL RK+K E
Sbjct: 298 EREALSKL----RKRKSE 311
>gi|218439766|ref|YP_002378095.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218172494|gb|ACK71227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 418
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 88/252 (34%), Positives = 153/252 (60%), Gaps = 13/252 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I A+ ++ +N+RLV+S+A+RY N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 168 ELEQIQKAGIEAKNHMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVEKFDPTK 227
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + KG TP+++ +
Sbjct: 228 GYRFSTYAYWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKMAQIKGRTPTMEEL 287
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A ++M+ ++R + + SL+ + G+ + + D E +P +
Sbjct: 288 AVEVDMTAPQIREVLMRVPRSVSLEIKV--------GKEKDTELVDLLETTEASPEESLV 339
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+ L+ ++ L + L RERE+I++ YG D +C + DI + + LSRERVRQ+ A+
Sbjct: 340 NETLRQDLQNL-LADLTTREREVIQMRYGFKDGKCYSLADIGRALQLSRERVRQIEAKAI 398
Query: 481 EKLKHAARKKKM 492
+KL+ R+ ++
Sbjct: 399 QKLRQPKRRNQI 410
>gi|383761703|ref|YP_005440685.1| putative RNA polymerase sigma factor [Caldilinea aerophila DSM
14535 = NBRC 104270]
gi|381381971|dbj|BAL98787.1| putative RNA polymerase sigma factor [Caldilinea aerophila DSM
14535 = NBRC 104270]
Length = 433
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 106/314 (33%), Positives = 175/314 (55%), Gaps = 21/314 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + + Y+K + LLT E V L+K+++ G + R K G R L
Sbjct: 135 IDDSISLYLKEIGRVPLLTAEEEVELAKRMERG-----REARKKLSEGVEDWEERERLLW 189
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+ + A+E L+ +N RLV+S+A++Y G DL+Q G IGL+R ++KFD S+G+K
Sbjct: 190 YVRDGQAAQEHLIKANSRLVVSVAKKYVGRGVPFLDLIQEGNIGLIRAVKKFDYSRGYKF 249
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ V+RA+ + RT+R+P H++E++ L R ++ ++E G P+ + IAE L
Sbjct: 250 STYATWWIRQAVTRAIADQGRTIRVPVHMYEQINRLTRTSRQLVQELGRDPTTEEIAEEL 309
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLP-GETHHSYIAD---NRVENNPWHGVDDW 423
+S +KV + + SL+ +P GE SY+ D + + P
Sbjct: 310 GVSPRKVEHIMRVSQRPLSLE---------MPVGEEEDSYLGDFIEDEDADAPGEAAGQQ 360
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L++ +++ I +L RE I++L +GL D C T E++ K+ G++RER+RQ+ AL +
Sbjct: 361 LLREVIDE-IFQSLTPREVRILQLRFGLVDGYCYTLEEVGKKFGVTRERIRQIEAQALSR 419
Query: 483 LKHAARKKKMEAML 496
L+H +R +K+ L
Sbjct: 420 LRHPSRSRKLRDYL 433
>gi|425434950|ref|ZP_18815414.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9432]
gi|425452918|ref|ZP_18832733.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 7941]
gi|440756483|ref|ZP_20935684.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
gi|389675427|emb|CCH95484.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9432]
gi|389765103|emb|CCI08956.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 7941]
gi|440173705|gb|ELP53163.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
Length = 318
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 108/316 (34%), Positives = 184/316 (58%), Gaps = 20/316 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLKHAARKKKMEAMLV 497
KL+ RK K+ L
Sbjct: 304 KLRK--RKAKIREYLA 317
>gi|408532063|emb|CCK30237.1| RNA polymerase principal sigma factor hrdA [Streptomyces davawensis
JCM 4913]
Length = 437
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 141 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLSNTPDLDSQLGL---DLDRLVVM 196
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 197 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 256
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 257 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPP 316
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 317 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 368
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 369 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 428
Query: 489 KKKMEAML 496
++ L
Sbjct: 429 ADQLRGYL 436
>gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis]
Length = 495
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 173/306 (56%), Gaps = 17/306 (5%)
Query: 202 SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------PELQSILMECSL 255
S LLT +E V LS+ I+ + LD + + KE+ G +++ + +++ M +
Sbjct: 194 SSRLLTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEV 253
Query: 256 ARE---KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
R+ K++ N+RLV+S+A+ Y N G + DL+Q G +GL+R EKFD S+GFK STY
Sbjct: 254 GRDSFDKIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYA 313
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRIAEYLNMSQ 371
YWWIRQ +++AL E SRT+RLP H+ E + IR A +L +E P+ + +AE +S
Sbjct: 314 YWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISM 373
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK 431
++R+ T SLDR ++ E +AD E+ V K ++++
Sbjct: 374 TRLRHVTRCSRVPTSLDRCVGKDMD----EKFSEIVADTNSESTE-TIVSKELFKKDLDR 428
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL RE++++RL YGLD + + ++ + LSRERVRQ+ + A+ KL+ R +
Sbjct: 429 -VLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQ 487
Query: 491 KMEAML 496
++ L
Sbjct: 488 HLKHYL 493
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKMEAML 496
K+++ +
Sbjct: 361 KQLKDFM 367
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 92/242 (38%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++MS KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMSPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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|406709820|ref|YP_006764546.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae
GD201008-001]
gi|417005760|ref|ZP_11944353.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae FSL
S3-026]
gi|421146424|ref|ZP_15606138.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae GB00112]
gi|424049118|ref|ZP_17786669.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae ZQ0910]
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]
gi|341577573|gb|EGS27981.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae FSL
S3-026]
gi|389649318|gb|EIM70800.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae ZQ0910]
gi|401686884|gb|EJS82850.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae GB00112]
gi|406650705|gb|AFS46106.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae
GD201008-001]
Length = 369
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKMEAML 496
K+++ +
Sbjct: 361 KQLKDFM 367
>gi|332709863|ref|ZP_08429819.1| RNA polymerase, sigma subunit, RpsC/SigC [Moorea producens 3L]
gi|332351234|gb|EGJ30818.1| RNA polymerase, sigma subunit, RpsC/SigC [Moorea producens 3L]
gi|332651114|gb|AEE81158.1| putative RNA polymerase sigma subunit [Moorea producens 3L]
Length = 417
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 93/260 (35%), Positives = 159/260 (61%), Gaps = 13/260 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++ EL+ + E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 163 LTSKELEQVQAEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 222
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +E+G T +
Sbjct: 223 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQERGRTAT 282
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
+D IA L M+ +VR + + SL+ + G+ + + D E +P
Sbjct: 283 IDDIAVELEMTAAQVREVLLRVPRSVSLEIKV--------GKERDTELGDLLETEETSPE 334
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
+ AL+ ++ +L + L RER++IR+ +GL D + + +I + + LSRERVRQ+
Sbjct: 335 EVLMREALQRDLQQL-LADLTNRERDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQIE 393
Query: 477 LVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 394 AKALQKLRQPKRRNRVRDYL 413
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 178/307 (57%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---------R 243
++ Y++ + +LLT E V LS +I+ L L++ K L+ +G + I +
Sbjct: 264 VRAYLRDIGRTKLLTAREEVDLSHQIQDLLKLENIKSNLEREIGRNATIGEWSRAVGMEQ 323
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
++ L + A++K+V SN+RLV+SIA+ Y G + DL+Q G +GL+RG EKFD +
Sbjct: 324 NAFEARLKKGRFAKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPT 383
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK-LRLEEKGVTPSVDR 362
KGFK STY +WWIRQ V+R++ + SRT+RLP HL+E + I AK + ++E G +
Sbjct: 384 KGFKFSTYAHWWIRQAVTRSIADQSRTIRLPIHLYEVISRINKAKRMLVQEHGREARNEE 443
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE + ++ +K+++ ++ S++R + GE +AD V ++P +
Sbjct: 444 VAELVGLTVEKLKSVVKSAKAPGSMERPIGKDGDTTLGE----LVADTDV-DSPEDAIVK 498
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
++ ++ ++ TL RERE++RL +GLD T E+I + ++RER+RQ+ A+
Sbjct: 499 QLMRQDIEG-VLRTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKVTRERIRQIEAKAMR 557
Query: 482 KLKHAAR 488
KL+ +R
Sbjct: 558 KLRQPSR 564
>gi|425455366|ref|ZP_18835086.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9807]
gi|389803770|emb|CCI17345.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9807]
Length = 318
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 105/303 (34%), Positives = 180/303 (59%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +P
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGL--SPEDYTAH 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 245 SSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|328954514|ref|YP_004371848.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfobacca
acetoxidans DSM 11109]
gi|328454838|gb|AEB10667.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfobacca
acetoxidans DSM 11109]
Length = 577
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 92/249 (36%), Positives = 157/249 (63%), Gaps = 14/249 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
+ S A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ +EKF+ +G+K STY
Sbjct: 335 QASRAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYERGYKFSTY 394
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + +AE +
Sbjct: 395 ATWWIRQAITRAIADQARTIRIPVHMIETINKLLRTSRYLVQEIGREPTPEELAEKMEYP 454
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 427
+KVR KV + +E SL GE SY+AD ++ ++P V++ L
Sbjct: 455 LEKVR-------KVLKIAKEPI-SLETPIGEEEDSYLADFIEDKKISSPTEAVENLNLA- 505
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
E+ + ++ TL RE ++IRL +G+ +K T E++ K+ ++RER+RQ+ AL KL+HA
Sbjct: 506 EITRKVLSTLTPREEKVIRLRFGIGEKTDHTLEEVGKKFMVTRERIRQIEAKALRKLRHA 565
Query: 487 ARKKKMEAM 495
+R K++++
Sbjct: 566 SRLKRLQSF 574
>gi|427712362|ref|YP_007060986.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
gi|427376491|gb|AFY60443.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
Length = 382
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 177/319 (55%), Gaps = 31/319 (9%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------- 235
++ ++ Y++ + LL E + L++KI L L+ + R+ E+L
Sbjct: 66 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRISEQLDCDPDDLERHPEPW 125
Query: 236 GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
S ++++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 126 ASEVKMTLPAFRHRLFVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 185
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 354
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E
Sbjct: 186 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEM 245
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 413
G P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 246 GRKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 295
Query: 414 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
++ P V L++++ ++ TL RER++++L YGLD + T E+I + ++R
Sbjct: 296 SDGETPEDQVSKHLLREDLET-VLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTR 354
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 355 ERIRQIEAKALRKLRHPNR 373
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 109/325 (33%), Positives = 187/325 (57%), Gaps = 30/325 (9%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHK----LRLKER---- 234
M+SP + ++ Y+K + LLT + + ++ ++ +++++ + L+L +
Sbjct: 1 MLSP--TTDSVRSYLKEIGRYPLLTPDQEITNARLVQQMMAVEEQRSNLALQLNRQPTDL 58
Query: 235 -LGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
L +SL + ELQS++ + A++K+V +N+RLV+S+A++Y N D DL+Q G +GL
Sbjct: 59 ELATSLGQNEAELQSVIQQGQKAKQKMVTANLRLVVSVAKKYQNYSLDFLDLLQEGALGL 118
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RGIEKFD +KG+K+STYVYWWI Q ++RA+ + SRT+RLP H++E+L IR + +L +
Sbjct: 119 QRGIEKFDPNKGYKLSTYVYWWITQSITRAVADKSRTIRLPIHINEKLNKIRRVQQQLSQ 178
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
G P V IAE LN+S ++R + + SL++ G+ S +AD
Sbjct: 179 SLGRPPVVAEIAESLNLSPNQIREYLQISKPLVSLEKRV--------GDEGESELADIL- 229
Query: 413 ENNPWHGV--DDWALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIG 466
P G+ D+ + + + ++ L R+RE++ L +GL D + LT ++KR+
Sbjct: 230 ---PMDGISLDEQITLESLQQDLAKLLALLKPRQREVLTLRFGLSDNQQLTLSQVAKRLN 286
Query: 467 LSRERVRQVGLVALEKLKHAARKKK 491
LSRE +R+ +AL L+ K K
Sbjct: 287 LSRETIRKTEHLALSILRSHQNKIK 311
>gi|339301170|ref|ZP_08650285.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
agalactiae ATCC 13813]
gi|319745370|gb|EFV97681.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
agalactiae ATCC 13813]
Length = 380
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 141 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 200
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 201 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 260
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 261 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 312
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 313 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 371
Query: 490 KKMEAML 496
K+++ +
Sbjct: 372 KQLKDFM 378
>gi|358461550|ref|ZP_09171710.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357073123|gb|EHI82638.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 416
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/310 (33%), Positives = 180/310 (58%), Gaps = 16/310 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSIL 250
+ ++ Y+ + LLT E V L+K+++ GL + +L G ++R+ R +L +
Sbjct: 118 DSVRQYLSQIGRVRLLTAEEEVDLAKRVEAGLFAAE---KLAADTGLAVRL-RADLTWVE 173
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
+ +A+ +LV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K ST
Sbjct: 174 RDGEVAKSRLVEANLRLVVSIARRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 233
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IA+ +++
Sbjct: 234 YATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIAKEMDL 293
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKD 427
+ KVR + + SL+ GE S++ D +++ VD + L
Sbjct: 294 TPDKVREIQKVAQEPISLETPI--------GEEEDSHLGDFIEDSDAVVPVDAASFLLLQ 345
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L KL+H
Sbjct: 346 EQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHP 405
Query: 487 ARKKKMEAML 496
+R +K+ L
Sbjct: 406 SRSQKLRDYL 415
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 179/316 (56%), Gaps = 18/316 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----- 236
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIHYGKQVQRCTTLYEVRENLATQLGYQPTL 73
Query: 237 ----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
+S ++ EL + + E +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 74 EEWAASAQVEPVELNTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGSIG 133
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 352
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 134 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 193
Query: 353 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
+K G P+ +A+ L ++ ++VR E SLD + + GE A
Sbjct: 194 QKLGRAPTAIELADELELTPRQVRECLEKARLPLSLDLRLGDNYDTELGEMLEDTGA--- 250
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 470
P V +L ++ +L + L +++E+I+L +GL D + LT I + + +SRE
Sbjct: 251 ---TPEDFVIQSSLSSDIERL-MKELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRE 306
Query: 471 RVRQVGLVALEKLKHA 486
RVRQ+ AL KL+ +
Sbjct: 307 RVRQIEREALTKLRKS 322
>gi|386840029|ref|YP_006245087.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|374100330|gb|AEY89214.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|451793323|gb|AGF63372.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis TL01]
Length = 374
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L +L +++
Sbjct: 78 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLGTTPDLDSELA---QDLDRLVVM 133
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 134 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 193
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + + +L++
Sbjct: 194 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVGAHLDLPP 253
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V G+V L +E SL+ GE + D + + V+ A L E
Sbjct: 254 ERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLREH 305
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 306 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 365
Query: 489 KKKMEAML 496
++ L
Sbjct: 366 ADQLRGYL 373
>gi|340354650|ref|ZP_08677352.1| DNA-directed RNA polymerase sigma subunit SigA [Sporosarcina
newyorkensis 2681]
gi|339623173|gb|EGQ27678.1| DNA-directed RNA polymerase sigma subunit SigA [Sporosarcina
newyorkensis 2681]
Length = 389
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 183/314 (58%), Gaps = 24/314 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT E V L+ +I+ + + L + ++ P++ +
Sbjct: 93 INDPVRMYLKEIGRVDLLTGKEEVDLAIRIQESIEAEAE-------LAETNEMT-PKIDA 144
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
++ A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 145 AIIRGENAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHTKGFKF 204
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +
Sbjct: 205 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEM 264
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
+++ +KVR ++ + +E SL GE S++ D +E++ D A
Sbjct: 265 DLTPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYE 315
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 316 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 374
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ L
Sbjct: 375 LRHPSRSKRLKDFL 388
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 182/320 (56%), Gaps = 28/320 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH + + K+++ +L + K L + L + ++
Sbjct: 25 VRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQLDP 84
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL +L + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD S
Sbjct: 85 QELNRLLGQGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPS 144
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ L + G +PS+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRYLSQTLGRSPSIAE 204
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ K+VR+ E SLD G+ + + + + + +P +D
Sbjct: 205 LAQELEITPKQVRDCLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 423 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+ +L E++++ + L ++RE+I+L +GL D + +T I + + +SRERVRQ+
Sbjct: 255 YVIQSSLSSELDRM-MTHLTPQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIER 313
Query: 478 VALEKLKHAARKKKMEAMLV 497
AL +L+ K M LV
Sbjct: 314 EALTRLRRC--KTSMSEYLV 331
>gi|428311648|ref|YP_007122625.1| RNA polymerase, sigma subunit, RpsC/SigC [Microcoleus sp. PCC 7113]
gi|428253260|gb|AFZ19219.1| RNA polymerase, sigma subunit, RpsC/SigC [Microcoleus sp. PCC 7113]
Length = 417
Score = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 96/269 (35%), Positives = 164/269 (60%), Gaps = 13/269 (4%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K+R +S EL+ I + + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +
Sbjct: 154 KQRWAELAGLSVKELEQIQSQGNRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTL 213
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++
Sbjct: 214 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKI 273
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD- 409
+EKG T +++ IA L M++++VR + + SL+ + G+ + + D
Sbjct: 274 SQEKGRTATIEDIALELEMTKEQVREVLLRVPRSVSLEIKV--------GKEKDTELGDL 325
Query: 410 -NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
E +P + AL+ ++ +L + L RER++IR+ +GL D + +I + + L
Sbjct: 326 LETEETSPEEVLMREALQRDLQQL-LADLTSRERDVIRMRFGLGDGHPYSLAEIGRALEL 384
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
SRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 385 SRERVRQIEAKALQKLRQPKRRNRVRDYL 413
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 178/306 (58%), Gaps = 19/306 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ + +I EL ++ +
Sbjct: 256 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR--ELHYVVQD 312
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 313 GQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 372
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A+ L M+
Sbjct: 373 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTP 432
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 433 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFMMLQE 483
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+ + KL+H
Sbjct: 484 QLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHP 542
Query: 487 ARKKKM 492
AR + +
Sbjct: 543 ARSQSL 548
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 182/314 (57%), Gaps = 22/314 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT + V L+ KI+ G + L++ + +SR E++
Sbjct: 135 LTGDPVRMYLKEIGKVDLLTADDEVHLAMKIEAGNKATEQ---LEKAEKGEIELSRSEMR 191
Query: 248 SILMECSL---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
++ E + A++ L +N+RL +SIA+RY G DL+Q G +GL+R +EKFD +K
Sbjct: 192 RLMREEQVGLDAKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTK 251
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS + I
Sbjct: 252 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEI 311
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
+ +NMS K+R ++ + +E SL GE S + D +E++ P
Sbjct: 312 GKEMNMSPDKIR-------EIQKISQEPV-SLETPIGEEEDSSLGDF-IEDSTAVAPPDA 362
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
D L++++N+ ++ +L +RER++I+ +GL D T E++ + G++RER+RQ+
Sbjct: 363 ASDSMLREQLNQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESK 421
Query: 479 ALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 422 TLAKLRHPSRSARL 435
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT E V L+++++ GL ++ RL G R++ +L +++
Sbjct: 91 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAEE---RLGTASGLDTRLAL-DLDRLVVM 146
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 147 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 206
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ D +A +L++
Sbjct: 207 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDEVAAHLDL-- 264
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
A E + +V L +E SL+ GE + D + + V+ A L E
Sbjct: 265 -----APERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 318
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 319 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 378
Query: 489 KKKMEAML 496
++ L
Sbjct: 379 ADQLRGYL 386
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 181/310 (58%), Gaps = 20/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 65 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLAGATDLDSQLAV---DLDKLVVM 120
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 121 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 180
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L ++
Sbjct: 181 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAAHLELTP 240
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
++V +V L +E SL+ GE + D +E+ +P + L++
Sbjct: 241 ERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGD-LIEDGDAASPMESAAFFLLRE 291
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+
Sbjct: 292 HLEA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDH 350
Query: 487 ARKKKMEAML 496
A ++ L
Sbjct: 351 AFADQLRGYL 360
>gi|425445105|ref|ZP_18825143.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9443]
gi|389734975|emb|CCI01445.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9443]
Length = 318
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 179/303 (59%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LGS + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|411120413|ref|ZP_11392785.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
gi|410709082|gb|EKQ66597.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
Length = 318
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 171/303 (56%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + V K+++ L+D K L RLG + ++S
Sbjct: 11 VRTYLREIGRVPLLTHEQEVVFGKQVQRLTLLNDTKDGLANRLGRTPSFEEWAQASQLSS 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AELKQAIAEGEYAKRKMVEANLRLVVSVAKKYTKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAATAAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L+++ K+VR+ E + SLD + + GE +P
Sbjct: 191 LAQELDLTPKQVRDYLEQARQPLSLDLRVGDNQDTELGELLED------TGTSPEEFALQ 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ L + L ++R+++ L +GL D + LT I ++ +SRERVRQ+ AL
Sbjct: 245 SSLRTDLESL-MADLTPQQRQVLTLRFGLEDGQALTLAKIGDQLNISRERVRQIEREALS 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 180/308 (58%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L SS R++ +L +++
Sbjct: 139 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLAATPDLNSS-RLAA-DLDRLVVM 195
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 196 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYA 255
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A L++
Sbjct: 256 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEVAAQLDLPP 315
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 316 ERV-------SEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 367
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 368 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 427
Query: 489 KKKMEAML 496
++ L
Sbjct: 428 ADQLRGYL 435
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 179/310 (57%), Gaps = 19/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ + +I EL ++ +
Sbjct: 266 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR--ELHYVVQD 322
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 323 GQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 382
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A+ L M+
Sbjct: 383 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTP 442
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 443 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFMMLQE 493
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+ + KL+H
Sbjct: 494 QLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHP 552
Query: 487 ARKKKMEAML 496
AR + + L
Sbjct: 553 ARSQSLRDYL 562
>gi|443627733|ref|ZP_21112109.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
gi|443338746|gb|ELS53012.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
Length = 430
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 134 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLGNTPDLDSELAL---DLDRLVVM 189
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 190 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 249
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 250 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPP 309
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 310 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 361
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 362 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 421
Query: 489 KKKMEAML 496
++ L
Sbjct: 422 ADQLRGYL 429
>gi|357639778|ref|ZP_09137651.1| RNA polymerase sigma factor RpoD [Streptococcus urinalis 2285-97]
gi|418416736|ref|ZP_12989935.1| RNA polymerase sigma factor rpoD [Streptococcus urinalis
FB127-CNA-2]
gi|357588232|gb|EHJ57640.1| RNA polymerase sigma factor RpoD [Streptococcus urinalis 2285-97]
gi|410874554|gb|EKS22485.1| RNA polymerase sigma factor rpoD [Streptococcus urinalis
FB127-CNA-2]
Length = 369
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 156/254 (61%), Gaps = 15/254 (5%)
Query: 245 ELQSILMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + E L A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD S
Sbjct: 119 ELAVAVAEGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYS 178
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQ 238
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 419
IAE ++M+ KVR ++ + +E SL GE S++ D + V NP
Sbjct: 239 IAERMDMTPDKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDY 290
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 478
L++++++ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+
Sbjct: 291 TTRVVLREQLDE-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 479 ALEKLKHAARKKKM 492
AL KL+H +R K++
Sbjct: 350 ALRKLRHPSRSKQL 363
>gi|379705528|ref|YP_005203987.1| RNA polymerase major sigma factor [Streptococcus infantarius subsp.
infantarius CJ18]
gi|374682227|gb|AEZ62516.1| RNA polymerase major sigma factor [Streptococcus infantarius subsp.
infantarius CJ18]
Length = 369
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 94/261 (36%), Positives = 158/261 (60%), Gaps = 15/261 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
I+ ELQ I + A+ +L+ +N+RLV++IA++Y + G + DL+Q G +GL R +EKF
Sbjct: 121 ITLSELQHIERQGQRAKNQLLQANLRLVVNIAKKYQHHGVEFLDLIQEGSLGLERAVEKF 180
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D +KGF+ STY YWWIRQ ++RA+ SRT+RLP H+ E+L I+ A+ RL ++G PS
Sbjct: 181 DPTKGFRFSTYAYWWIRQSITRAVASQSRTIRLPIHMVEKLNKIKRAQRRLAAQRGAMPS 240
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ IA+ LN+ +VR A+ K +L++ G ET + + +P
Sbjct: 241 LADIAQELNLEVSQVRQVLMAVPKSVALEQRV-----GSDQETELQELIE-----SPAPT 290
Query: 420 VDDWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
D+ +++ + K ++ L RER+++ L YGL ++ L +++ +GLSRER+RQ+
Sbjct: 291 PDEVIMRESLRTTLKQLLSDLSPRERQVMELRYGLGEQPALELAEVAVLLGLSRERIRQI 350
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL+KL+ R+++++ L
Sbjct: 351 EHRALQKLRQPQRRREIQDYL 371
>gi|445381040|ref|ZP_21427050.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus MTCC
5460]
gi|445394106|ref|ZP_21428784.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus MTCC
5461]
gi|444749031|gb|ELW73968.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus MTCC
5461]
gi|444749087|gb|ELW74017.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus MTCC
5460]
Length = 369
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 179/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y+K + LL+H E + +K+++ ++L+ + + + G + ++SR
Sbjct: 11 VRAYLKEIGRVPLLSHEEEILYAKRVQRLINLEKLREEIIQETGKEPTNSQWAKAAKLSR 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
E S++ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLRV--------GDNQDTELGD--LLEDEGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++ KL + L +++++I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEKL-MEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALSKLR 306
>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|386087088|ref|YP_006002962.1| RNA polymerase sigma factor [Streptococcus thermophilus ND03]
gi|386345168|ref|YP_006041332.1| lysyl-tRNA synthetase [Streptococcus thermophilus JIM 8232]
gi|387910190|ref|YP_006340496.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus
MN-ZLW-002]
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]
gi|339278629|emb|CCC20377.1| lysyl-tRNA synthetase [Streptococcus thermophilus JIM 8232]
gi|387575125|gb|AFJ83831.1| RNA polymerase sigma factor RpoD [Streptococcus thermophilus
MN-ZLW-002]
Length = 369
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>gi|91203809|emb|CAJ71462.1| strongly similar to transcription initiation factor sigma RpoD
[Candidatus Kuenenia stuttgartiensis]
Length = 551
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 157/269 (58%), Gaps = 16/269 (5%)
Query: 230 RLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 289
RLK RL S ++SI E A+ KL +N+RLV+SIA++Y N G DL+Q G
Sbjct: 290 RLKRRLLS--------IESIYKEHESAKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEG 341
Query: 290 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AK 348
GL+R ++K++ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + IRN +K
Sbjct: 342 NTGLMRAVDKYEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETMSKIRNISK 401
Query: 349 LRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA 408
L++KG P+++ IA + +S + R + SLDR S + G+ +I
Sbjct: 402 KLLQDKGREPTIEEIAREVKISVPEARRVLKISRHQISLDRPVGESEDSSFGD----FIE 457
Query: 409 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
D + E +P LKD++ ++ TL REREII+L YG+ D T E++ K +
Sbjct: 458 DEKAE-SPVAAATQEMLKDKIES-VLETLTYREREIIKLRYGIGDGYTYTLEEVGKIFKV 515
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
+RERVRQ+ A+ KL+H R +K+E L
Sbjct: 516 TRERVRQIEAKAVRKLQHPIRSRKLEGFL 544
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 100/319 (31%), Positives = 181/319 (56%), Gaps = 26/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH + + K+++ +L + K L + L + ++
Sbjct: 25 VRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQLDP 84
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL +L + +A+ K+V +N+RL++S+A++Y D+ DL+Q G IG+ RG+EKFD S
Sbjct: 85 QELNRLLAQGEIAKRKMVEANLRLLVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPS 144
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ L + G +PS+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRDLSQTLGRSPSIAE 204
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ K+VR+ E SLD G+ + + + + + +P +D
Sbjct: 205 LAQELEITPKQVRDCLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 423 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ ++ ++ + ++ L ++RE+I+L +GL D + +T I + + +SRERVRQ+
Sbjct: 255 YVIQSSLSSELERMMTHLTTQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIERE 314
Query: 479 ALEKLKHAARKKKMEAMLV 497
AL +L+ K M LV
Sbjct: 315 ALTRLRRC--KTSMSEYLV 331
>gi|306833811|ref|ZP_07466936.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis
ATCC 700338]
gi|336064578|ref|YP_004559437.1| RNA polymerase primary sigma factor [Streptococcus pasteurianus
ATCC 43144]
gi|304424005|gb|EFM27146.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis
ATCC 700338]
gi|334282778|dbj|BAK30351.1| RNA polymerase primary sigma factor [Streptococcus pasteurianus
ATCC 43144]
Length = 369
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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|340398343|ref|YP_004727368.1| RNA polymerase sigma factor [Streptococcus salivarius CCHSS3]
gi|387784602|ref|YP_006070685.1| rNA polymerase sigma factor [Streptococcus salivarius JIM8777]
gi|418017355|ref|ZP_12656914.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius M18]
gi|419707740|ref|ZP_14235220.1| RNA polymerase sigma factor [Streptococcus salivarius PS4]
gi|421452880|ref|ZP_15902236.1| RNA polymerase sigma factor rpoD [Streptococcus salivarius K12]
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]
gi|338742336|emb|CCB92841.1| RNA polymerase sigma factor [Streptococcus salivarius CCHSS3]
gi|338745484|emb|CCB95850.1| rNA polymerase sigma factor [Streptococcus salivarius JIM8777]
gi|345528048|gb|EGX31356.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius M18]
gi|383282573|gb|EIC80557.1| RNA polymerase sigma factor [Streptococcus salivarius PS4]
gi|400181189|gb|EJO15456.1| RNA polymerase sigma factor rpoD [Streptococcus salivarius K12]
Length = 369
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 105/309 (33%), Positives = 181/309 (58%), Gaps = 18/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 93 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLSSTPDLDSQLGL---DLDKLVVM 148
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 149 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 208
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 209 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPG 268
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDE 428
++V +V L +E SL+ GE + D + + V+ A L++
Sbjct: 269 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLREH 320
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 321 LDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHA 379
Query: 488 RKKKMEAML 496
++ L
Sbjct: 380 FADQLRGYL 388
>gi|357636066|ref|ZP_09133941.1| RNA polymerase sigma factor RpoD [Streptococcus macacae NCTC 11558]
gi|357584520|gb|EHJ51723.1| RNA polymerase sigma factor RpoD [Streptococcus macacae NCTC 11558]
Length = 370
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPIDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
++
Sbjct: 363 QL 364
>gi|153304|gb|AAA26762.1| principal sigma-like factor [Streptomyces aureofaciens]
gi|450077|prf||1920369A RNA polymerase:SUBUNIT=sigma
Length = 393
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 97 FRQYLREIGRIPLLTAAEEVDLARRVEAGL-FAEEKLGGAADLDSQLAV---DLDRLVVM 152
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 153 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 212
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L ++
Sbjct: 213 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTP 272
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L+ E
Sbjct: 273 ERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLRCEH 324
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 325 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 384
Query: 489 KKKMEAML 496
++ L
Sbjct: 385 ADQLRGYL 392
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 179/310 (57%), Gaps = 19/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ + +I EL ++ +
Sbjct: 267 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR--ELHYVVQD 323
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 324 GQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 383
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A+ L M+
Sbjct: 384 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTP 443
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 444 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFMMLQE 494
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+ + KL+H
Sbjct: 495 QLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHP 553
Query: 487 ARKKKMEAML 496
AR + + L
Sbjct: 554 ARSQSLRDYL 563
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 100/313 (31%), Positives = 178/313 (56%), Gaps = 18/313 (5%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG------ 236
M + E ++ ++ Y++ + LLTH + + K+++ + + L +RLG
Sbjct: 1 MKTAETSKDLVRAYLREIGRVPLLTHEQEILYGKQVQQLAIVQQVREELSDRLGHEPDLT 60
Query: 237 ---SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
++ ++S ELQ ++ LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWATAAKLSEAELQGVVNRGELAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQ 180
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
+ G ++ +A+ L ++ K+VR E + SLD + + GE A
Sbjct: 181 QLGRAATIGELAQELELTPKQVREYLERSRQPLSLDVRVGDNQDTELGELLEDTAA---- 236
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 471
+P +L+ ++++L + L ++R+++ L +GL D + LT + + +SRER
Sbjct: 237 --SPEDFTSQASLRADLDRL-MADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRER 293
Query: 472 VRQVGLVALEKLK 484
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>gi|15674827|ref|NP_269001.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes SF370]
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|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|383479781|ref|YP_005388675.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS15252]
gi|383493698|ref|YP_005411374.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS1882]
gi|386362456|ref|YP_006071787.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes Alab49]
gi|410680280|ref|YP_006932682.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes A20]
gi|417857191|ref|ZP_12502250.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes HKU
QMH11M0907901]
gi|421892179|ref|ZP_16322879.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NS88.2]
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]
gi|350276865|gb|AEQ24233.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes Alab49]
gi|378927771|gb|AFC65977.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS15252]
gi|378929426|gb|AFC67843.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes MGAS1882]
gi|379982064|emb|CCG26601.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes NS88.2]
gi|387934146|gb|EIK42259.1| RNA polymerase sigma factor RpoD [Streptococcus pyogenes HKU
QMH11M0907901]
gi|395453652|dbj|BAM29991.1| RNA polymerase sigma factor [Streptococcus pyogenes M1 476]
gi|409692869|gb|AFV37729.1| RNA polymerase sigma factor rpoD [Streptococcus pyogenes A20]
Length = 369
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKM 492
K++
Sbjct: 361 KQL 363
>gi|398786196|ref|ZP_10548973.1| RNA polymerase sigma factor [Streptomyces auratus AGR0001]
gi|396993817|gb|EJJ04874.1| RNA polymerase sigma factor [Streptomyces auratus AGR0001]
Length = 385
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 105/309 (33%), Positives = 181/309 (58%), Gaps = 18/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L + L + +L +++
Sbjct: 89 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLTNTPDLSTRLAV---DLDRLVVL 144
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 145 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 204
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L ++
Sbjct: 205 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLGLTG 264
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDE 428
++V +V L +E SL+ GE + D + + V+ A L++
Sbjct: 265 ERVT-------EVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 316
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 317 LDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRDHA 375
Query: 488 RKKKMEAML 496
++ L
Sbjct: 376 FADQLRGYL 384
>gi|425441618|ref|ZP_18821888.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9717]
gi|425463479|ref|ZP_18842815.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9809]
gi|389717608|emb|CCH98320.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9717]
gi|389832304|emb|CCI24201.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9809]
Length = 318
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 178/303 (58%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + +K+++ + L+ K L+ +LG + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRAKLGREPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>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|386338028|ref|YP_006034197.1| RNA polymerase primary sigma factor [Streptococcus gallolyticus
subsp. gallolyticus ATCC 43143]
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]
gi|334280664|dbj|BAK28238.1| RNA polymerase primary sigma factor [Streptococcus gallolyticus
subsp. gallolyticus ATCC 43143]
Length = 369
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|171779914|ref|ZP_02920818.1| hypothetical protein STRINF_01701 [Streptococcus infantarius subsp.
infantarius ATCC BAA-102]
gi|171281262|gb|EDT46697.1| RNA polymerase sigma factor RpoD [Streptococcus infantarius subsp.
infantarius ATCC BAA-102]
Length = 369
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 177/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L +L +++
Sbjct: 90 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLSSTPDLDSRLAG---DLDRLVVS 145
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 146 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 205
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +A L+++
Sbjct: 206 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPAEVAAQLDLTP 265
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
+V G+V L +E SL+ GE + D + + V+ A L E
Sbjct: 266 DRV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 317
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 318 LEAVLSTLGERERKVVQLRYGLMDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 377
Query: 489 KKKMEAML 496
++ L
Sbjct: 378 ADQLRGYL 385
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKM 492
K++
Sbjct: 361 KQL 363
>gi|409358553|ref|ZP_11236916.1| RNA polymerase sigma factor SigB [Dietzia alimentaria 72]
Length = 322
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 167/302 (55%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V LSK+I+ GL H L K+R+G + + +L++++ E
Sbjct: 29 YLNGIGKTALLKAEDEVELSKRIEAGL-YAQHILATKKRIGP---VRKSDLKAVVAEGEA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G ++D +AE + K+
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGRESTLDELAEESGIPAHKI 204
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPG---ETHHSYIADNRVENNPWHGVDDWALKDEVNK 431
+ SLD G E + A+N V +N H +V +
Sbjct: 205 EELLDHSRDPVSLDMPVGADEEAPLGDFIEDAEATSAENTVLSNVMHS--------DV-R 255
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++I L +GL D + T + I KR GLSRERVRQ+ + KL+ R
Sbjct: 256 AVLATLEEREQQVIMLRFGLNDGQPRTLDQIGKRFGLSRERVRQIEREVMAKLREGRRAD 315
Query: 491 KM 492
K+
Sbjct: 316 KL 317
>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|386578260|ref|YP_006074666.1| RNA polymerase sigma factor rpoD [Streptococcus suis GZ1]
gi|386580329|ref|YP_006076734.1| RNA polymerase sigma factor RpoD [Streptococcus suis JS14]
gi|386582344|ref|YP_006078748.1| RNA polymerase sigma factor RpoD [Streptococcus suis SS12]
gi|386584473|ref|YP_006080876.1| RNA polymerase sigma factor RpoD [Streptococcus suis D9]
gi|386588530|ref|YP_006084931.1| RNA polymerase sigma factor RpoD [Streptococcus suis A7]
gi|389856915|ref|YP_006359158.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST1]
gi|403061898|ref|YP_006650114.1| RNA polymerase sigma factor RpoD [Streptococcus suis S735]
gi|417092434|ref|ZP_11957118.1| RNA polymerase sigma factor RpoD [Streptococcus suis R61]
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]
gi|353532427|gb|EHC02098.1| RNA polymerase sigma factor RpoD [Streptococcus suis R61]
gi|353734490|gb|AER15500.1| RNA polymerase sigma factor RpoD [Streptococcus suis SS12]
gi|353736619|gb|AER17628.1| RNA polymerase sigma factor RpoD [Streptococcus suis D9]
gi|353740633|gb|AER21640.1| RNA polymerase sigma factor RpoD [Streptococcus suis ST1]
gi|354985691|gb|AER44589.1| RNA polymerase sigma factor RpoD [Streptococcus suis A7]
gi|402809224|gb|AFR00716.1| RNA polymerase sigma factor RpoD [Streptococcus suis S735]
Length = 372
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 134 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KV
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 254 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 306 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 364
Query: 491 KM 492
+
Sbjct: 365 PL 366
>gi|386586536|ref|YP_006082938.1| RNA polymerase sigma factor RpoD [Streptococcus suis D12]
gi|353738682|gb|AER19690.1| RNA polymerase sigma factor RpoD [Streptococcus suis D12]
Length = 372
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 134 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KV
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 254 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 306 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 364
Query: 491 KM 492
+
Sbjct: 365 PL 366
>gi|428226816|ref|YP_007110913.1| RNA polymerase, sigma subunit, RpsC/SigC [Geitlerinema sp. PCC
7407]
gi|427986717|gb|AFY67861.1| RNA polymerase, sigma subunit, RpsC/SigC [Geitlerinema sp. PCC
7407]
Length = 414
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 92/254 (36%), Positives = 155/254 (61%), Gaps = 9/254 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 164 ELEQIQREGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 223
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ I
Sbjct: 224 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDI 283
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L M+ +VR + + SL+ + + GE + + P +
Sbjct: 284 ARELEMTSPQVREVLLRVPRSVSLETKVGKEKDTELGELLETD------DVTPEETLMRE 337
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RER++I++ +GL D + +I + + LSRERVRQ+ AL+K
Sbjct: 338 SLRRDLQQL-LADLTSRERDVIQMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQK 396
Query: 483 LKHAARKKKMEAML 496
L+ R+ ++ L
Sbjct: 397 LRQPKRRNRIRDYL 410
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKM 492
K++
Sbjct: 361 KQL 363
>gi|416388961|ref|ZP_11685251.1| Cyanobacteria-specific RpoD-like sigma factor, type-2 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
gi|357264325|gb|EHJ13231.1| Cyanobacteria-specific RpoD-like sigma factor, type-2 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
Length = 318
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 179/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISR 243
++ Y+K + LL+H E + +K+++ ++L+ + + + G + ++SR
Sbjct: 11 VRAYLKEIGRVPLLSHEEEILYAKRVQRLVNLEKLREEIIQETGKEPTNSQWAKAAKLSR 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
E S++ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLRV--------GDNQDTELGD--LLEDEGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++ KL + L +++++I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEKL-MEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALSKLR 306
>gi|210633964|ref|ZP_03297935.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279]
gi|210159008|gb|EEA89979.1| RNA polymerase sigma factor RpoD [Collinsella stercoris DSM 13279]
Length = 445
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 184/318 (57%), Gaps = 22/318 (6%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT AE V L+ KI+ GL D +L+++ + ++R E++
Sbjct: 138 LTGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGLDAAD---KLEKQEAGEIELTRAEMR 194
Query: 248 SILM--ECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
++ + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD K
Sbjct: 195 RLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEK 254
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I
Sbjct: 255 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEI 314
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
++MS +VR ++ + +E SL GE S + D +E+ P
Sbjct: 315 GAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDAQAVVPADA 365
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
L++++ + ++ L ERER++I L +GL D T E++ + G++RER+RQ+
Sbjct: 366 ASFSMLQEQLTQ-VLDGLAERERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESK 424
Query: 479 ALEKLKHAARKKKMEAML 496
L KL+H +R K++ L
Sbjct: 425 TLAKLRHPSRSSKLKDYL 442
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 184/318 (57%), Gaps = 22/318 (6%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT AE V L+ KI+ GL D +L+++ + ++R E++
Sbjct: 141 LTGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGLDAAD---KLEKQEAGEIELTRAEMR 197
Query: 248 SILM--ECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
++ + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD K
Sbjct: 198 RLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEK 257
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I
Sbjct: 258 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEI 317
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
++MS +VR ++ + +E SL GE S + D +E+ P
Sbjct: 318 GAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDAQAVVPADA 368
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
L++++ + ++ L ERER++I L +GL D T E++ + G++RER+RQ+
Sbjct: 369 ASFSMLQEQLTQ-VLDGLAERERKVIELRFGLEDGHPRTLEEVGREFGVTRERIRQIESK 427
Query: 479 ALEKLKHAARKKKMEAML 496
L KL+H +R K++ L
Sbjct: 428 TLAKLRHPSRSSKLKDYL 445
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 109/315 (34%), Positives = 178/315 (56%), Gaps = 26/315 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQ 247
+ ++ Y+K + LLT AE V L+K+I+ GL E+L ++ +IS R +LQ
Sbjct: 102 DPVRMYLKTIGRVRLLTAAEEVDLAKRIEAGLFA-------SEKLAATRKISPQLRQDLQ 154
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
++ + +A+ KLV +N+RLV+SIA+RY G + DL+Q G +GL+R +EKFD +KG+K
Sbjct: 155 AVEQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYTKGYK 214
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEY 366
STY WWIRQ V+RAL + RT+R+P H+ E + + R + L+E G PS + I
Sbjct: 215 FSTYATWWIRQAVTRALADQGRTIRIPVHMAETVNKVTRIQRQLLQELGREPSPEEIGTQ 274
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDD 422
++++ KV E I K+ + +L G S + D +E++ P+
Sbjct: 275 IDLTAHKV----EEILKIA----QTPVALETPIGAEQDSQLGDF-IEDDDAIAPFEAASS 325
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
L+ + ++ TL RE+++I+L +GL D + T E I + G+ +ER+RQ+ L
Sbjct: 326 VLLQKHIES-VLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREFGIPQERIRQIESRTLA 384
Query: 482 KLKHAARKKKMEAML 496
KL H AR +++ L
Sbjct: 385 KLSHPARSQRLRDYL 399
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 179/310 (57%), Gaps = 19/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ + +I EL ++ +
Sbjct: 267 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR--ELHYVVQD 323
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 324 GQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 383
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A+ L M+
Sbjct: 384 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAQELEMTP 443
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 444 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFMMLQE 494
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+ + KL+H
Sbjct: 495 QLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHP 553
Query: 487 ARKKKMEAML 496
AR + + L
Sbjct: 554 ARSQSLRDYL 563
>gi|257063660|ref|YP_003143332.1| RNA polymerase sigma factor RpoD [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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 179/314 (57%), Gaps = 14/314 (4%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + LLT +E V L+ KI+ G++ +L E G L
Sbjct: 88 LTGDPVRMYLKEIGKVPLLTPSEEVDLAMKIEAGVAAT-AELEKAEEEGVELDRRERRRL 146
Query: 248 SILMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
+ + + L A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KGF
Sbjct: 147 TRVEQVGLDAKDQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGF 206
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS + I E
Sbjct: 207 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGE 266
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DW 423
+ +S ++VR ++ L +E SL GE S + D +++ VD +
Sbjct: 267 KMGLSAERVR-------EIQKLSQEPV-SLETPIGEEEDSQLGDFIEDDSAIVPVDAASF 318
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
A+ E ++ TLGERER ++ +GL D + T E++ + G++RER+RQ+ L K
Sbjct: 319 AMMQEQLSKVLDTLGERERNVVIKRFGLEDGQPHTLEEVGREFGVTRERIRQIESKTLAK 378
Query: 483 LKHAARKKKMEAML 496
L+H +R K++ L
Sbjct: 379 LRHPSRSSKLKDYL 392
>gi|434393099|ref|YP_007128046.1| RNA polymerase, sigma subunit, RpsC/SigC [Gloeocapsa sp. PCC 7428]
gi|428264940|gb|AFZ30886.1| RNA polymerase, sigma subunit, RpsC/SigC [Gloeocapsa sp. PCC 7428]
Length = 413
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 94/254 (37%), Positives = 157/254 (61%), Gaps = 9/254 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I E + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R ++KFD +K
Sbjct: 163 ELEQIQSEGNRAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTK 222
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP++D I
Sbjct: 223 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIDDI 282
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L M+ +VR + + SL+ + + GE + + + +P +
Sbjct: 283 AAELEMTPPQVREVLLRVPRSVSLETKVGKEKDTELGE----LLETDSI--SPEEVLMRE 336
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
AL+ ++ L + L +RER++I + +GL D + +I + + LSRERVRQ+ AL+K
Sbjct: 337 ALQRDLQHL-LADLTDRERDVILMRFGLGDGHSYSLAEIGRALDLSRERVRQIESKALQK 395
Query: 483 LKHAARKKKMEAML 496
L+ R+ ++ L
Sbjct: 396 LRQPKRRNQVRDYL 409
>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|387786373|ref|YP_006251469.1| RNA polymerase sigma factor RpoD [Streptococcus mutans LJ23]
gi|397649517|ref|YP_006490044.1| RNA polymerase sigma factor RpoD [Streptococcus mutans GS-5]
gi|449863184|ref|ZP_21778115.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U2B]
gi|449871415|ref|ZP_21781101.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 8ID3]
gi|449875272|ref|ZP_21782119.1| RNA polymerase sigma factor RpoD [Streptococcus mutans S1B]
gi|449880747|ref|ZP_21784053.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SA38]
gi|449887577|ref|ZP_21786915.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SA41]
gi|449890943|ref|ZP_21787629.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF12]
gi|449897824|ref|ZP_21790221.1| RNA polymerase sigma factor RpoD [Streptococcus mutans R221]
gi|449904034|ref|ZP_21792468.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M230]
gi|449909967|ref|ZP_21794460.1| RNA polymerase sigma factor RpoD [Streptococcus mutans OMZ175]
gi|449915272|ref|ZP_21796162.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 15JP3]
gi|449919308|ref|ZP_21797840.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 1SM1]
gi|449926929|ref|ZP_21801012.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 4SM1]
gi|449931286|ref|ZP_21802272.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 3SN1]
gi|449935919|ref|ZP_21803701.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 2ST1]
gi|449944107|ref|ZP_21806605.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11A1]
gi|449951017|ref|ZP_21808489.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11SSST2]
gi|449958846|ref|ZP_21809933.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 4VF1]
gi|449964897|ref|ZP_21811545.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 15VF2]
gi|449970983|ref|ZP_21814154.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 2VS1]
gi|449973718|ref|ZP_21814873.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11VS1]
gi|449979648|ref|ZP_21816820.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 5SM3]
gi|449985666|ref|ZP_21819787.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NFSM2]
gi|449989742|ref|ZP_21821232.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NVAB]
gi|449994267|ref|ZP_21822430.1| RNA polymerase sigma factor RpoD [Streptococcus mutans A9]
gi|450001754|ref|ZP_21825809.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N29]
gi|450005984|ref|ZP_21826971.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NMT4863]
gi|450010162|ref|ZP_21828536.1| RNA polymerase sigma factor RpoD [Streptococcus mutans A19]
gi|450025113|ref|ZP_21831578.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U138]
gi|450030723|ref|ZP_21833380.1| RNA polymerase sigma factor RpoD [Streptococcus mutans G123]
gi|450034902|ref|ZP_21834690.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M21]
gi|450040110|ref|ZP_21836620.1| RNA polymerase sigma factor RpoD [Streptococcus mutans T4]
gi|450050063|ref|ZP_21840067.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NFSM1]
gi|450057450|ref|ZP_21842589.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML4]
gi|450061370|ref|ZP_21843773.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML5]
gi|450066763|ref|ZP_21846164.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML9]
gi|450072469|ref|ZP_21848608.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M2A]
gi|450077229|ref|ZP_21850300.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N3209]
gi|450081743|ref|ZP_21851910.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N66]
gi|450087823|ref|ZP_21854474.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NV1996]
gi|450098290|ref|ZP_21857942.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF1]
gi|450104894|ref|ZP_21859527.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF14]
gi|450111345|ref|ZP_21862647.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM6]
gi|450115262|ref|ZP_21863830.1| RNA polymerase sigma factor RpoD [Streptococcus mutans ST1]
gi|450121109|ref|ZP_21866136.1| RNA polymerase sigma factor RpoD [Streptococcus mutans ST6]
gi|450126341|ref|ZP_21868132.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U2A]
gi|450131685|ref|ZP_21869646.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML8]
gi|450136993|ref|ZP_21871344.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML1]
gi|450143265|ref|ZP_21873332.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 1ID3]
gi|450153093|ref|ZP_21877018.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 21]
gi|450161001|ref|ZP_21880302.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 66-2A]
gi|450165105|ref|ZP_21881682.1| RNA polymerase sigma factor RpoD [Streptococcus mutans B]
gi|450169639|ref|ZP_21883097.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM4]
gi|450176137|ref|ZP_21885591.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM1]
gi|450179918|ref|ZP_21886878.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 24]
gi|18202024|sp|O33662.1|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]
gi|379132774|dbj|BAL69526.1| RNA polymerase sigma factor RpoD [Streptococcus mutans LJ23]
gi|392603086|gb|AFM81250.1| RNA polymerase sigma factor RpoD [Streptococcus mutans GS-5]
gi|449148806|gb|EMB52643.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11A1]
gi|449152423|gb|EMB56130.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 1ID3]
gi|449153691|gb|EMB57341.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML8]
gi|449155420|gb|EMB58934.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 8ID3]
gi|449156738|gb|EMB60197.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 15JP3]
gi|449159570|gb|EMB62899.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 1SM1]
gi|449160147|gb|EMB63428.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 4SM1]
gi|449162824|gb|EMB65945.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 3SN1]
gi|449166055|gb|EMB69014.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 2ST1]
gi|449166706|gb|EMB69632.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11SSST2]
gi|449169691|gb|EMB72453.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 4VF1]
gi|449171995|gb|EMB74637.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 15VF2]
gi|449172655|gb|EMB75273.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 2VS1]
gi|449177744|gb|EMB80033.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 5SM3]
gi|449178868|gb|EMB81106.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NFSM2]
gi|449179207|gb|EMB81429.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 11VS1]
gi|449182241|gb|EMB84277.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NVAB]
gi|449184163|gb|EMB86119.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N29]
gi|449185558|gb|EMB87436.1| RNA polymerase sigma factor RpoD [Streptococcus mutans A9]
gi|449188024|gb|EMB89762.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NMT4863]
gi|449190392|gb|EMB91968.1| RNA polymerase sigma factor RpoD [Streptococcus mutans A19]
gi|449191303|gb|EMB92809.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U138]
gi|449192464|gb|EMB93885.1| RNA polymerase sigma factor RpoD [Streptococcus mutans G123]
gi|449196018|gb|EMB97316.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M21]
gi|449199564|gb|EMC00625.1| RNA polymerase sigma factor RpoD [Streptococcus mutans T4]
gi|449203090|gb|EMC03968.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NFSM1]
gi|449205235|gb|EMC05990.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML4]
gi|449207455|gb|EMC08130.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML5]
gi|449208562|gb|EMC09146.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML9]
gi|449211167|gb|EMC11582.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M2A]
gi|449211419|gb|EMC11823.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N3209]
gi|449214960|gb|EMC15188.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N66]
gi|449217362|gb|EMC17423.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NV1996]
gi|449221686|gb|EMC21448.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF1]
gi|449223915|gb|EMC23575.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM6]
gi|449225365|gb|EMC24972.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF14]
gi|449228223|gb|EMC27602.1| RNA polymerase sigma factor RpoD [Streptococcus mutans ST1]
gi|449229502|gb|EMC28813.1| RNA polymerase sigma factor RpoD [Streptococcus mutans ST6]
gi|449231574|gb|EMC30747.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U2A]
gi|449235924|gb|EMC34866.1| RNA polymerase sigma factor RpoD [Streptococcus mutans NLML1]
gi|449239233|gb|EMC37960.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 66-2A]
gi|449239332|gb|EMC38057.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 21]
gi|449240959|gb|EMC39610.1| RNA polymerase sigma factor RpoD [Streptococcus mutans B]
gi|449245699|gb|EMC44027.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM1]
gi|449246990|gb|EMC45282.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SM4]
gi|449248640|gb|EMC46871.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 24]
gi|449252525|gb|EMC50502.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SA41]
gi|449252586|gb|EMC50561.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SA38]
gi|449254106|gb|EMC52031.1| RNA polymerase sigma factor RpoD [Streptococcus mutans S1B]
gi|449256970|gb|EMC54780.1| RNA polymerase sigma factor RpoD [Streptococcus mutans SF12]
gi|449260012|gb|EMC57523.1| RNA polymerase sigma factor RpoD [Streptococcus mutans M230]
gi|449260671|gb|EMC58168.1| RNA polymerase sigma factor RpoD [Streptococcus mutans OMZ175]
gi|449260750|gb|EMC58244.1| RNA polymerase sigma factor RpoD [Streptococcus mutans R221]
gi|449265167|gb|EMC62494.1| RNA polymerase sigma factor RpoD [Streptococcus mutans U2B]
Length = 371
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 491 KM 492
++
Sbjct: 364 QL 365
>gi|410594839|ref|YP_006951566.1| RNA polymerase sigma factor rpoD [Streptococcus agalactiae SA20-06]
gi|421532597|ref|ZP_15978953.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae
STIR-CD-17]
gi|403642169|gb|EJZ03036.1| RNA polymerase sigma factor RpoD [Streptococcus agalactiae
STIR-CD-17]
gi|410518478|gb|AFV72622.1| RNA polymerase sigma factor rpoD [Streptococcus agalactiae SA20-06]
Length = 369
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 90/247 (36%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQDLGQDPTPEQIAERMDMTPDK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 431 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 490 KKMEAML 496
K+++ +
Sbjct: 361 KQLKDFM 367
>gi|406926592|gb|EKD62776.1| hypothetical protein ACD_52C00059G0002 [uncultured bacterium]
Length = 359
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 157/246 (63%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D +GFK STY WW
Sbjct: 122 AKDKLIESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRRGFKFSTYATWW 181
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L R ++ ++E G P+ + IAE + +++++V
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLYRTSRKLMQELGREPTPEEIAEEMELTEERV 241
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++F + +E SL G+ S + D + + VD + LKD +++
Sbjct: 242 R-------EIFKISQEV-TSLETPVGDDGESVLGDFIPDESHLSPVDQASKQLLKDHLDE 293
Query: 432 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE ++++L +GLD + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLSTLTEREAKVLKLRFGLDGSKQMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 491 KMEAML 496
K++ L
Sbjct: 353 KLQDYL 358
>gi|390438835|ref|ZP_10227270.1| RNA polymerase sigma factor rpoD3 [Microcystis sp. T1-4]
gi|389837758|emb|CCI31394.1| RNA polymerase sigma factor rpoD3 [Microcystis sp. T1-4]
Length = 318
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 178/303 (58%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + +K+++ + L+ K L+ +LG + IS
Sbjct: 11 VRSYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRSQLGREPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|428211704|ref|YP_007084848.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
gi|428000085|gb|AFY80928.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
Length = 318
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 104/307 (33%), Positives = 173/307 (56%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + L K+++ L + K L E+ G + +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEIVLGKQVQHLSLLHEMKETLTEQFGHEPTDVEWSQAAGLSL 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
ELQ + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 VELQQAIEQGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A L ++ G T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKASRELSQQLGRTATIGE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A L +S K++R E SLD G+ H + +++ + P +D
Sbjct: 191 LAVELELSPKQIREYMERARHPLSLDLRV--------GDNHDTELSELLEDTGP--SPED 240
Query: 423 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+ A++ ++ KL + L ++RE+I L +GL D + +T I R+ +SRERVRQ+
Sbjct: 241 FATHSAMRADLEKL-MSELTTQQREVIALRFGLEDGQAMTLSKIGDRLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALTKLR 306
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 180/308 (58%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L SS R++ +L +++
Sbjct: 88 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLAATPDLNSS-RLA-ADLDRLVVM 144
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 145 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYA 204
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A L++
Sbjct: 205 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEVAAQLDLPP 264
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 265 ERV-------SEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 316
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 317 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 376
Query: 489 KKKMEAML 496
++ L
Sbjct: 377 ADQLRGYL 384
>gi|450091610|ref|ZP_21855570.1| RNA polymerase sigma factor RpoD [Streptococcus mutans W6]
gi|450147780|ref|ZP_21875278.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 14D]
gi|449219183|gb|EMC19160.1| RNA polymerase sigma factor RpoD [Streptococcus mutans W6]
gi|449236640|gb|EMC35550.1| RNA polymerase sigma factor RpoD [Streptococcus mutans 14D]
Length = 371
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 491 KM 492
++
Sbjct: 364 QL 365
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 105/316 (33%), Positives = 178/316 (56%), Gaps = 28/316 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPEL 246
Y++ + LL+H E + K+++ +L + L E LG + +S+ EL
Sbjct: 15 YLREIGRVPLLSHEEEILYGKQVQRLTALQEFNQTLAEALGREPTLLEWAEAKELSKSEL 74
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
Q I+ E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +KG+
Sbjct: 75 QRIIREGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGY 134
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 365
+ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L ++ G + + IAE
Sbjct: 135 RFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKVQRQLTQQLGRSATTGEIAE 194
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
L ++ K++R L+R P SL+ G+ + + D + + +D+A
Sbjct: 195 ELGLTPKQIREC---------LERARLPLSLDLRVGDNQDTELGD--LLEDTGASPEDYA 243
Query: 425 LKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
L+ + + I+V L ++++++ L +GL D + +T I + +SRERVRQ+ AL
Sbjct: 244 LQSSMRTDLESIMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREAL 303
Query: 481 EKLKHAARKKKMEAML 496
KL+ RK+ M L
Sbjct: 304 SKLRK--RKQDMNDYL 317
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 151 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 210
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+MS+ KV
Sbjct: 211 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMSEDKV 270
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 271 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPESNVEAVMLREHIDS 322
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 323 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 381
Query: 491 KMEAML 496
++ L
Sbjct: 382 RIRDFL 387
>gi|450044960|ref|ZP_21838164.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N34]
gi|449201072|gb|EMC02084.1| RNA polymerase sigma factor RpoD [Streptococcus mutans N34]
Length = 371
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 491 KM 492
++
Sbjct: 364 QL 365
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+M+++KV
Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 268 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADTNVLSPEGNVESVMLREHIDT 319
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 320 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 378
Query: 491 KMEAML 496
++ L
Sbjct: 379 RIRDFL 384
>gi|408401406|ref|YP_006859369.1| DNA primase [Streptococcus dysgalactiae subsp. equisimilis RE378]
gi|407967634|dbj|BAM60872.1| DNA primase [Streptococcus dysgalactiae subsp. equisimilis RE378]
Length = 983
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 745 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 804
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 805 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 864
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 865 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 916
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 917 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 975
Query: 491 KMEAML 496
++ +
Sbjct: 976 QLRDFI 981
>gi|224542125|ref|ZP_03682664.1| hypothetical protein CATMIT_01300 [Catenibacterium mitsuokai DSM
15897]
gi|224524962|gb|EEF94067.1| RNA polymerase sigma factor RpoD [Catenibacterium mitsuokai DSM
15897]
Length = 418
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 115/337 (34%), Positives = 184/337 (54%), Gaps = 50/337 (14%)
Query: 168 NKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
NK Q + + + S I + +K Y+K + +LLTH + + L+K+I G
Sbjct: 122 NKMYNQSDDDDDMNQLGSNVKINDPVKMYLKEIGRVDLLTHEQEIELAKRILEG------ 175
Query: 228 KLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
A+++L +N+RLV+SIA+RY G DL+Q
Sbjct: 176 -------------------------DEQAKKELAAANLRLVVSIAKRYVGRGMLFLDLIQ 210
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R
Sbjct: 211 EGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRI 270
Query: 347 AKLRLEEKGVTPSVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHH 404
+ ++E G P+ + IAE ++ M+ KVR I K+ SL+ P SL GE
Sbjct: 271 QRQLVQELGREPTAEEIAEKMDGMTPAKVRE----IQKI-SLE----PVSLETPIGEEDD 321
Query: 405 SYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWE 459
S++ D +E+ DD+A LKDE+N+ +++ L +RE +++RL +GLD T E
Sbjct: 322 SHLGD-FIEDEGAMSPDDYASNELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLE 379
Query: 460 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ K ++RER+RQ+ AL KLKH +R K+++ L
Sbjct: 380 EVGKEFNVTRERIRQIEAKALRKLKHPSRSKRLKDFL 416
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|302024138|ref|ZP_07249349.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05HAS68]
Length = 372
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 134 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KV
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + + NP L++++++
Sbjct: 254 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEIIENPVDYTTRVVLREQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 306 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 364
Query: 491 KM 492
+
Sbjct: 365 PL 366
>gi|392331209|ref|ZP_10275824.1| RNA polymerase sigma factor RpoD [Streptococcus canis FSL Z3-227]
gi|391418888|gb|EIQ81700.1| RNA polymerase sigma factor RpoD [Streptococcus canis FSL Z3-227]
Length = 369
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
++ +
Sbjct: 362 QLRDFM 367
>gi|225868705|ref|YP_002744653.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp.
zooepidemicus]
gi|414563852|ref|YP_006042813.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp.
zooepidemicus ATCC 35246]
gi|225701981|emb|CAW99541.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp.
zooepidemicus]
gi|338846917|gb|AEJ25129.1| RNA polymerase sigma factor RpoD [Streptococcus equi subsp.
zooepidemicus ATCC 35246]
Length = 369
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|429197710|ref|ZP_19189588.1| putative RNA polymerase sigma factor RpoD [Streptomyces ipomoeae
91-03]
gi|428666600|gb|EKX65745.1| putative RNA polymerase sigma factor RpoD [Streptomyces ipomoeae
91-03]
Length = 429
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 133 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLSNTPDLDSELAL---DLDRLVVM 188
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 189 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 248
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 249 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGHEPTPEEVAAHLDLLP 308
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 309 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 360
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 361 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 420
Query: 489 KKKMEAML 496
++ L
Sbjct: 421 ADQLRGYL 428
>gi|406658579|ref|ZP_11066719.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus iniae
9117]
gi|405578794|gb|EKB52908.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus iniae
9117]
Length = 369
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 155/254 (61%), Gaps = 15/254 (5%)
Query: 245 ELQSILMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + E L A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD S
Sbjct: 119 ELAVAVAEGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYS 178
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQ 238
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 419
IAE + M+ KVR ++ + +E SL GE S++ D + V NP
Sbjct: 239 IAERMEMTPDKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDY 290
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 478
L++++++ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+
Sbjct: 291 TTRVVLREQLDE-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 479 ALEKLKHAARKKKM 492
AL KL+H +R K++
Sbjct: 350 ALRKLRHPSRSKQL 363
>gi|220907205|ref|YP_002482516.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7425]
gi|219863816|gb|ACL44155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 455
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 154/256 (60%), Gaps = 13/256 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL I E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 205 ELDQIQKEGVRAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 264
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TPS++ I
Sbjct: 265 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGHTPSIEDI 324
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A L M+ +VR + + SL+ + G+ + + D + +P +
Sbjct: 325 ATELEMTVPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDLSPEEMMM 376
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+L E+ KL + L RER++I + +GL D + DI + + LSRERVRQ+ AL
Sbjct: 377 RESLHRELEKL-LADLTSRERDVISMRFGLGDGHAYSLADIGRALDLSRERVRQIEAKAL 435
Query: 481 EKLKHAARKKKMEAML 496
+KL+ R+ ++ L
Sbjct: 436 QKLRQPKRRNRVRDYL 451
>gi|434405382|ref|YP_007148267.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428259637|gb|AFZ25587.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 390
Score = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL ERL + ++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSERLERDPKDSEWAAEVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>gi|354566206|ref|ZP_08985379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353546714|gb|EHC16162.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 318
Score = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 171/303 (56%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + K+++ +L + + L +LG ++ ++
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVRELLATQLGREPTLEEWATATQLEL 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 TELNQAIADAEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G PSV
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAPSVAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ ++VR E SLD + + GE A +P V
Sbjct: 191 LAQELELTSRQVREYLEKARVPLSLDIRLGDNYDTELGEMLEDPGA------SPEEFVTQ 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L ++ +L + L ++RE+I L +GL D LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSGDLERL-MAELTPQQREVISLRFGLNDGHALTLAKIGEILNISRERVRQIEREALS 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>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 = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 172/307 (56%), Gaps = 47/307 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+K + +LLT E V L+K+I+ G +
Sbjct: 134 YLKEIGRVDLLTADEEVALAKRIEAG-------------------------------DPV 162
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 163 AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 222
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R++ + +RT+R+P H+ E + L+R + L+E G P+ + I +++ +KV
Sbjct: 223 IRQAITRSIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPEEIGAEMDLPTEKV 282
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
RN + + +E SL GE S++ D +E+N D++ LK+++N
Sbjct: 283 RN-------IMKISQEPV-SLETPIGEEDDSHLGDF-IEDNDAMQPDEYTNQELLKEQLN 333
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE ++RL +GL D + T E + ++ G++RER+RQ+ AL KL+H +R
Sbjct: 334 E-VLDTLTDREENVLRLRFGLEDGQTKTLEQVGQQFGVTRERIRQIEAKALRKLRHPSRL 392
Query: 490 KKMEAML 496
K+++ L
Sbjct: 393 KQLKDFL 399
>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 = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ AE V L+++++ GL + KL L S L + +L +++
Sbjct: 147 FRQYLREIGRIPLLSAAEEVELARRVEAGL-FAEEKLASAPDLDSQLAL---DLDRLVVL 202
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 203 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 262
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L+++
Sbjct: 263 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAIHLDLTP 322
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 323 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 374
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 375 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 434
Query: 489 KKKMEAML 496
++ L
Sbjct: 435 ADQLRGYL 442
>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 = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/249 (36%), Positives = 153/249 (61%), Gaps = 8/249 (3%)
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
Q +L A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGF
Sbjct: 147 QRVLKGDEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGF 206
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +++
Sbjct: 207 KFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELSK 266
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 425
L + KV+N E SL+ + G+ ++ D++ NP+ L
Sbjct: 267 KLEIPVDKVKNILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-LNPYDATTRVLL 321
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 484
K+++++ I+ TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+
Sbjct: 322 KEQLDE-ILKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLR 380
Query: 485 HAARKKKME 493
H +R+KK+E
Sbjct: 381 HPSRRKKLE 389
>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 = 164 bits (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|357238685|ref|ZP_09126021.1| RNA polymerase sigma factor RpoD [Streptococcus ictaluri 707-05]
gi|356752407|gb|EHI69532.1| RNA polymerase sigma factor RpoD [Streptococcus ictaluri 707-05]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 178/316 (56%), Gaps = 18/316 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----- 236
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRSCTLHESRESLATQLGRQPTL 73
Query: 237 ----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
+ ++ EL + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 74 EEWAKATKLEPVELNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 133
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 352
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 134 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 193
Query: 353 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
+K G P+ +A+ L ++ K+VR E SLD + + GE A
Sbjct: 194 QKLGRAPTAGELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA--- 250
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 470
+P V +L ++++L + L ++RE+I L +GL D + LT I + + +SRE
Sbjct: 251 ---SPEEFVMQSSLSYDLDRL-MGDLTPQQREVITLRFGLTDGQALTLAKIGEILNISRE 306
Query: 471 RVRQVGLVALEKLKHA 486
RVRQ+ AL KL+ +
Sbjct: 307 RVRQIEREALTKLRKS 322
>gi|387760846|ref|YP_006067823.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius 57.I]
gi|339291613|gb|AEJ52960.1| RNA polymerase sigma factor RpoD [Streptococcus salivarius 57.I]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>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|416851020|ref|ZP_11908361.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus LQ
940-04]
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]
gi|356740699|gb|EHI65922.1| RNA polymerase sigma factor RpoD [Streptococcus pseudoporcinus LQ
940-04]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 114/316 (36%), Positives = 179/316 (56%), Gaps = 50/316 (15%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + +K Y+K + ELL+H E + L+K+I G D +
Sbjct: 147 INDPVKMYLKEIGRVELLSHDEEIDLAKRILEG----DEE-------------------- 182
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 183 -------AKKKLAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKF 235
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + ++E G P + IAE +
Sbjct: 236 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRVQRQLIQELGREPLAEEIAEKM 295
Query: 368 N-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA- 424
+ M+ +KVR I K+ SL+ P SL GE S++ D +E+ DD+A
Sbjct: 296 DGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHLGD-FIEDEGAMSPDDYAA 345
Query: 425 ---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
LKDE+N+ +++ L +RE +++RL +GLD T E++ K ++RER+RQ+ AL
Sbjct: 346 NELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVGKEFNVTRERIRQIEAKAL 404
Query: 481 EKLKHAARKKKMEAML 496
KLKH +R K+++ L
Sbjct: 405 RKLKHPSRSKRLKDFL 420
>gi|422303427|ref|ZP_16390778.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9806]
gi|389791615|emb|CCI12597.1| RNA polymerase sigma factor rpoD3 [Microcystis aeruginosa PCC 9806]
Length = 318
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 103/303 (33%), Positives = 178/303 (58%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGRDPSDRQWSEAAEISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERARQPLSLDLKVGDNQDTELGE----LLEDKGLSPEDYTAYS- 245
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|159901184|ref|YP_001547431.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159894223|gb|ABX07303.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 375
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 171/305 (56%), Gaps = 21/305 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG----LSLDDHKLRLKERLGSSLRISRP 244
+ + ++ Y++ + LLT E L+K+++ G + L H+ L+E+
Sbjct: 75 LDDPVRMYLREIGQVHLLTAHEETMLAKQLERGERAMIRLARHEYLLEEK---------A 125
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
LQ ++E AR+ L+ +N+RLV+SIA++Y G DL+Q G IGL+R EKFD K
Sbjct: 126 RLQQQVLESEAARQHLIQANLRLVVSIAKKYVGRGMSFLDLIQEGNIGLMRATEKFDYHK 185
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRI 363
GFK STY WWIRQ ++R++ ++SRT+RLP H+ E + ++ +L++ PS + I
Sbjct: 186 GFKFSTYATWWIRQAITRSISDHSRTIRLPVHVGETINRVKRTAHKLQQALEREPSAEEI 245
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
E L + KVR E + SL+ + + G+ +I D+R + P +
Sbjct: 246 GEALGLPADKVRRVLEVARQPVSLETPVGNEGDSVLGD----FIEDDR-SSEPLDHATEH 300
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L++++++ ++ L ERER II L YGL D + T E++ + G++RER+RQ+ L K
Sbjct: 301 LLREQLDE-VLCKLDERERRIIELRYGLVDGKYRTLEEVGREFGITRERIRQIEAKVLRK 359
Query: 483 LKHAA 487
L+H A
Sbjct: 360 LRHPA 364
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMGMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ +
Sbjct: 362 QLKDFI 367
>gi|386316726|ref|YP_006012890.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis ATCC 12394]
gi|323127013|gb|ADX24310.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis ATCC 12394]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|358068528|ref|ZP_09154990.1| hypothetical protein HMPREF9333_01871 [Johnsonella ignava ATCC
51276]
gi|356693345|gb|EHI55024.1| hypothetical protein HMPREF9333_01871 [Johnsonella ignava ATCC
51276]
Length = 349
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 94/243 (38%), Positives = 147/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR+KLV +N+RLV+SIA++Y N G + DL+Q G +GL+R ++KFD SKGF+ STY WW
Sbjct: 113 ARKKLVEANLRLVVSIARKYTNRGLHLLDLIQEGNLGLMRAVDKFDVSKGFRFSTYATWW 172
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ +SRA+ E SRT+R+P H+ E + + N K R L + P + +AE + +S +KV
Sbjct: 173 IRQAISRAISEQSRTIRIPVHMVEVMNKLVNEKKRFLIQHNREPLAEELAEIMGISIEKV 232
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ S++ +NG +I+D R + P+ + LK++V + +
Sbjct: 233 NEVIKLTQDTISIE----TPINGDEDSYLRDFISDERA-STPYEKTQENILKEKVEE-AL 286
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE+I+L +G+ D + T E++ K G++RER+RQ+ + AL KL+H KK+
Sbjct: 287 SDLTLREREVIKLRFGIPDGKTHTLEEVGKYFGITRERIRQIEVKALRKLRHIGVIKKLN 346
Query: 494 AML 496
L
Sbjct: 347 DFL 349
>gi|410494499|ref|YP_006904345.1| RNA polymerase sigma factor rpoD [Streptococcus dysgalactiae subsp.
equisimilis AC-2713]
gi|417751908|ref|ZP_12400163.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis SK1249]
gi|417927017|ref|ZP_12570405.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis SK1250]
gi|333772308|gb|EGL49166.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis SK1249]
gi|340764891|gb|EGR87417.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
equisimilis SK1250]
gi|410439659|emb|CCI62287.1| RNA polymerase sigma factor rpoD [Streptococcus dysgalactiae subsp.
equisimilis AC-2713]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|422758662|ref|ZP_16812424.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
dysgalactiae ATCC 27957]
gi|322411497|gb|EFY02405.1| RNA polymerase sigma factor RpoD [Streptococcus dysgalactiae subsp.
dysgalactiae ATCC 27957]
Length = 369
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>gi|428307214|ref|YP_007144039.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428248749|gb|AFZ14529.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 318
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 173/315 (54%), Gaps = 24/315 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRI 241
+ ++ Y++ + LLTH + + K+++ ++L K L LG + +
Sbjct: 9 DTVRAYLREIGRVPLLTHEQEILYGKQVQRLVALRAVKSSLSAELGDEPNFSQWAQACEL 68
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
ELQ + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 69 EEQELQQAIATAELAKRKMVEANLRLVVSVAKKYIKRNIDLLDLIQEGTIGMQRGVEKFD 128
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
+KG++ STY YWWIRQ ++RA+ E +R +RLP H+ E+L I+ A+ L +K G +V
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKARAIRLPIHITEKLNKIKKAQRSLSQKLGRAATV 188
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWH 418
+AE L ++ +VR E + SLD G+ + + D +P
Sbjct: 189 TELAEELELTPPQVREYLERARQPLSLDLRV--------GDHQDTELGDLLEDTGPSPED 240
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
V A++ ++ KL + L +++R+++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FVTQSAMQMDLEKL-LSDLTQQQRDVLSLRFGLADGQPLTLAKIGDRLSISRERVRQIER 299
Query: 478 VALEKLKHAARKKKM 492
AL KL+ RK M
Sbjct: 300 EALAKLRK--RKADM 312
>gi|345851793|ref|ZP_08804757.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
gi|345636744|gb|EGX58287.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
Length = 442
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 146 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLGGTPDLDSELAL---DLDRLVVM 201
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 202 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 261
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A++L++
Sbjct: 262 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTHEEVADHLDLLP 321
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 322 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 373
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 374 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 433
Query: 489 KKKMEAML 496
++ L
Sbjct: 434 ADQLRGYL 441
>gi|386810761|ref|ZP_10097987.1| RNA polymerase sigma factor RpoD [planctomycete KSU-1]
gi|386405485|dbj|GAB60868.1| RNA polymerase sigma factor RpoD [planctomycete KSU-1]
Length = 550
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 98/269 (36%), Positives = 159/269 (59%), Gaps = 16/269 (5%)
Query: 230 RLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 289
RLK R+ S +++I E A+ KL +N+RLV+SIA++Y N G DL+Q G
Sbjct: 290 RLKRRVES--------IENIYREHEAAKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEG 341
Query: 290 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AK 348
GL+R ++K++ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + IRN +K
Sbjct: 342 NTGLMRAVDKYEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETMSKIRNVSK 401
Query: 349 LRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA 408
L+EKG P+++ I++ + ++ ++ R + SLDR S + G+ +I
Sbjct: 402 KLLQEKGREPTIEEISKEVKITVEEARRVLKISRHQISLDRPVGESEDSSFGD----FIE 457
Query: 409 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
D + E +P LKD++ ++ TL REREII+L YG+ D T E++ K +
Sbjct: 458 DEKAE-SPVSAATQEMLKDKIES-VLETLTYREREIIKLRYGIGDGYTYTLEEVGKIFKV 515
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
+RERVRQ+ A+ KL+H R +K+E L
Sbjct: 516 TRERVRQIEAKAVRKLQHPIRSRKLEGFL 544
>gi|335045942|ref|ZP_08538965.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 108
str. F0425]
gi|363897360|ref|ZP_09323899.1| hypothetical protein HMPREF9624_00461 [Oribacterium sp. ACB7]
gi|333759728|gb|EGL37285.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 108
str. F0425]
gi|361958857|gb|EHL12154.1| hypothetical protein HMPREF9624_00461 [Oribacterium sp. ACB7]
Length = 385
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+M+++KV
Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 268 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLSPEGNVESVMLREHIDS 319
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L+ L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 320 LLD-DLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 378
Query: 491 KMEAML 496
++ L
Sbjct: 379 RIRDFL 384
>gi|374307576|ref|YP_005054007.1| RNA polymerase sigma factor RpoD [Filifactor alocis ATCC 35896]
gi|291166412|gb|EFE28458.1| RNA polymerase sigma factor RpoD [Filifactor alocis ATCC 35896]
Length = 372
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 104/288 (36%), Positives = 173/288 (60%), Gaps = 18/288 (6%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPEL---QSILMECSLAREKLVMSNVRLVMSIAQ 273
+ G+S+DD ++ LKE SL + E+ Q + LA++KLV +N+RLV+SIA+
Sbjct: 93 VPKGISVDDPVRMYLKEIGKISLLSAEEEIELAQKMDQGSELAKKKLVEANLRLVVSIAK 152
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+
Sbjct: 153 RYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI 212
Query: 334 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + LIR + L+E G P + I++ ++MS +K+R ++ + +E
Sbjct: 213 PVHMVETINKLIRVQRQLLQELGREPRPEEISKVMDMSVEKIR-------EIQKISQEPV 265
Query: 393 PSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYY 449
SL GE S++ D +++ P LK+++ + ++ TL ERE+++++L +
Sbjct: 266 -SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSLLKEQLEE-VLSTLNEREQKVLKLRF 323
Query: 450 GL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
GL D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 324 GLEDGRTRTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 371
>gi|357055293|ref|ZP_09116365.1| hypothetical protein HMPREF9467_03337 [Clostridium clostridioforme
2_1_49FAA]
gi|355382932|gb|EHG30022.1| hypothetical protein HMPREF9467_03337 [Clostridium clostridioforme
2_1_49FAA]
Length = 381
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 97/247 (39%), Positives = 149/247 (60%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 144 FAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 203
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 373
WIRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ K
Sbjct: 204 WIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDK 263
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 430
V ++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 VM-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHID 315
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 316 AL-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRS 374
Query: 490 KKMEAML 496
K++ L
Sbjct: 375 KRIRDFL 381
>gi|354615678|ref|ZP_09033420.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
gi|353219969|gb|EHB84465.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
Length = 347
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 168/302 (55%), Gaps = 14/302 (4%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ E V L+K+I+ G+ H L E L R+ EL +++ + +
Sbjct: 54 YLNGIGRTALLSAQEEVDLAKRIEAGV-FAQHVLDTDEDLSRERRL---ELAAVVRDGQV 109
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 110 AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 169
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L +K G + + +A +++ KV
Sbjct: 170 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQKLGREATNEELAAESGIAEHKV 229
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGE-THHSYIADNRVENNPWHGVDDWALKDEVNKLI 433
N + SLD + G+ S AD EN+ G+ L D++ + +
Sbjct: 230 SNLLDHARDPVSLDMPVGSEEDAPLGDFIEDSEAAD--AENSVISGL----LHDDLRR-V 282
Query: 434 IVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE+ +IRL YGLD + T + I + LSRERVRQ+ + KL+H R K+
Sbjct: 283 LATLDEREQNVIRLRYGLDDGQPRTLDQIGRHFNLSRERVRQIEREVMAKLRHGERADKL 342
Query: 493 EA 494
A
Sbjct: 343 RA 344
>gi|428208314|ref|YP_007092667.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428010235|gb|AFY88798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 318
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 175/313 (55%), Gaps = 18/313 (5%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG------ 236
M + + + ++ Y++ + LLTH + + K+++ +L + L +LG
Sbjct: 1 MKTAQTTTDLVRTYLREIGRVPLLTHEQEIVYGKQVQRLSTLYALQEELVAKLGREPTLE 60
Query: 237 ---SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
+ RI + L + + E +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSEAARIDKTALSTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQ 180
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
G PS+ +A L ++ K+VR E SLD + + GE + D +
Sbjct: 181 NLGRAPSIVELATALELTPKQVREYLERARLPLSLDLRVGDNQDTELGE----LLEDTSL 236
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 471
+P V + L ++ KL + L ++RE++ L +GL D + +T I R+ +SRER
Sbjct: 237 --SPEEFVTESCLSTDIEKL-MADLTPQQREVLSLRFGLADGQAMTLAKIGDRLNISRER 293
Query: 472 VRQVGLVALEKLK 484
VRQ+ AL KL+
Sbjct: 294 VRQIEREALTKLR 306
>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]
gi|456370656|gb|EMF49552.1| RNA polymerase sigma factor [Streptococcus parauberis KRS-02109]
gi|457095698|gb|EMG26169.1| RNA polymerase sigma factor [Streptococcus parauberis KRS-02083]
Length = 369
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
++
Sbjct: 362 QL 363
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 97/247 (39%), Positives = 149/247 (60%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 144 FAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 203
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 373
WIRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ K
Sbjct: 204 WIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDK 263
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 430
V ++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 VM-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHID 315
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 316 AL-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRS 374
Query: 490 KKMEAML 496
K++ L
Sbjct: 375 KRIRDFL 381
>gi|302386858|ref|YP_003822680.1| RpoD subfamily RNA polymerase sigma-70 subunit [Clostridium
saccharolyticum WM1]
gi|302197486|gb|ADL05057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
saccharolyticum WM1]
Length = 380
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 98/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 144 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 203
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+MS+ KV
Sbjct: 204 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVSELAEALDMSEDKV 263
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 315
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 316 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 374
Query: 491 KMEAML 496
++ L
Sbjct: 375 RIRDFL 380
>gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri]
gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri]
Length = 525
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 106/327 (32%), Positives = 174/327 (53%), Gaps = 32/327 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPE----- 245
+ ++ Y+K + S LL + V L+K+I+ + L+ + L E G + +S +
Sbjct: 201 DSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLIEETGPGVELSESQWAAAA 260
Query: 246 ------LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
L+ L + A+ +++ +N+RLV+SIA++Y N DL+Q G +GL+RG EK
Sbjct: 261 GLNVSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYANTNMSFQDLIQEGCVGLIRGAEK 320
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK----- 354
FD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + I ++E+K
Sbjct: 321 FDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRIS----KMEQKFALYN 376
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 414
G P+++ IA + MS +K+ +A SL + GE I D ++
Sbjct: 377 GRPPTLEEIASEMEMSVEKITQIKKAAQAPVSL-------AQTMGGENKGRTIEDTLIDA 429
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRE 470
N P LK+++ ++ TL RER+++RL YGLD T E+I ++RE
Sbjct: 430 NAEGPEKVSGKSLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRE 488
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLV 497
R+RQ+ AL KLK +R + ++ V
Sbjct: 489 RIRQIEAKALRKLKQPSRNQVLQEYFV 515
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDKV 264
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 491 KMEAML 496
++ L
Sbjct: 376 RIRDFL 381
>gi|428315679|ref|YP_007113561.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
gi|428239359|gb|AFZ05145.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
Length = 319
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 100/307 (32%), Positives = 173/307 (56%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ +L K L E LG ++ +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKNILAEELGRDPTAAEWAQAVGLSE 71
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATAAE 191
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 421
+A L ++ K++R LDR P SL+ G+ + + D + + +
Sbjct: 192 LASELELTPKQIRE---------YLDRARLPLSLDLRVGDNQDTELGD--LLEDTGTTPE 240
Query: 422 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D+AL+ + ++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQSSLRTDLDQLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIER 300
Query: 478 VALEKLK 484
AL KL+
Sbjct: 301 EALTKLR 307
>gi|421490977|ref|ZP_15938344.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus SK1138]
gi|400371974|gb|EJP24923.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus SK1138]
Length = 370
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|133468|sp|P27785.1|RPOD_STRAU RecName: Full=RNA polymerase sigma factor RpoD
Length = 317
Score = 163 bits (413), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL L S L + +L +++
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGL-FAEEKLGGAADLDSQLAV---DLDRLVVM 76
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 77 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 136
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L ++
Sbjct: 137 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTP 196
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L+ E
Sbjct: 197 ERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLRCEH 248
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 249 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 308
Query: 489 KKKMEAML 496
++ L
Sbjct: 309 ADQLRGYL 316
>gi|428320222|ref|YP_007118104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
gi|428243902|gb|AFZ09688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
Length = 357
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 106/309 (34%), Positives = 170/309 (55%), Gaps = 28/309 (9%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRL---------KERLGSSLRISRPELQSILMECSL 255
LLT AE V L+++++ ++LD+ + RL K L ++L IS +LQ + +C
Sbjct: 59 LLTAAEEVELARRVQELVALDELEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQS 118
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWW
Sbjct: 119 AKRKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWW 178
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG----LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
IRQG++R + RT+RLP H+ E+L + R+ K L+ P+ +A + +S
Sbjct: 179 IRQGITRTIANQGRTIRLPVHIVEQLNKLKKVYRDLKRSLQR---NPTETELAREMEVSC 235
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
+ +R + R SLN G S + D + +P +++ ++ +
Sbjct: 236 EHLRYLQQV--------RRQSLSLNHRIGSEESSELLDVLEDNATQSPEAQMNEMMMRQD 287
Query: 429 VNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+ +++ L ERE+EI+ + YG L E T E++S LSRERVRQ+ A+ KL+
Sbjct: 288 ILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRRPQ 347
Query: 488 RKKKMEAML 496
++++ L
Sbjct: 348 VTERLKGWL 356
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa]
gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa]
Length = 564
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 111/320 (34%), Positives = 174/320 (54%), Gaps = 25/320 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
L+ + S LL+ E V LS+ I+ L L+ + LKER G ++ R+ +
Sbjct: 254 LRFFRGASTSSRLLSATEEVELSEGIQDLLKLERIEEELKERFGGKPTFAQWAAAARVDQ 313
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
L+ L L ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG+EKFD+S
Sbjct: 314 ITLRKRLNYAILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGVEKFDAS 373
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KGFK STY +WWIRQ V R+L + SRT+RLP H+ + ++ A+ + E G P
Sbjct: 374 KGFKFSTYAHWWIRQAVRRSLSDQSRTIRLPFHMVDATYRVKEARKQFYSENGRHPDDKE 433
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI-ADNRVENNPWHGVD 421
+AE +S K++ SLD++ G + S + AD E +
Sbjct: 434 VAEATGLSMKRLSAVLLTPKAPRSLDQKM-----GFNMDLKLSEVTADPEAET-----AE 483
Query: 422 DWALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D +K+ + K ++ +L RE ++IR +G+ D T ++I + +G+SRER+RQ+ L
Sbjct: 484 DLLMKEFMKKDLERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIEL 543
Query: 478 VALEKLKHAARKKKMEAMLV 497
A KLK+ R K++ LV
Sbjct: 544 SAFRKLKNKNRTKQLRQYLV 563
>gi|335031422|ref|ZP_08524860.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus SK52 =
DSM 20563]
gi|418964831|ref|ZP_13516619.1| RNA polymerase sigma factor RpoD [Streptococcus constellatus subsp.
constellatus SK53]
gi|423068552|ref|ZP_17057340.1| RNA polymerase sigma factor rpoD [Streptococcus intermedius F0395]
gi|333769639|gb|EGL46740.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus SK52 =
DSM 20563]
gi|355366807|gb|EHG14524.1| RNA polymerase sigma factor rpoD [Streptococcus intermedius F0395]
gi|383344232|gb|EID22401.1| RNA polymerase sigma factor RpoD [Streptococcus constellatus subsp.
constellatus SK53]
Length = 370
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|414157272|ref|ZP_11413572.1| RNA polymerase sigma factor rpoD [Streptococcus sp. F0442]
gi|410868588|gb|EKS16553.1| RNA polymerase sigma factor rpoD [Streptococcus sp. F0442]
Length = 369
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|319947289|ref|ZP_08021522.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
australis ATCC 700641]
gi|417920600|ref|ZP_12564102.1| RNA polymerase sigma factor RpoD [Streptococcus australis ATCC
700641]
gi|319746531|gb|EFV98791.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
australis ATCC 700641]
gi|342828525|gb|EGU62895.1| RNA polymerase sigma factor RpoD [Streptococcus australis ATCC
700641]
Length = 370
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|417917416|ref|ZP_12560975.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis
SK236]
gi|342830053|gb|EGU64392.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis
SK236]
Length = 369
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL+E+L +++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQEQLEREPEYREWAEAVQ 139
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
I P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 IPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>gi|386386524|ref|ZP_10071665.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
gi|385666011|gb|EIF89613.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
Length = 409
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 176/308 (57%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L++ ++ GL + KL L S + +L +++
Sbjct: 112 FRQYLREIGRIPLLTAAEEVELARCVEAGL-FAEEKLAGTPDLNDSPLAA--DLDRLVVL 168
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 169 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 228
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E G P+ D +A L++
Sbjct: 229 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEHGQEPTADEVAAQLDLPP 288
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++ IG+V L +E SL+ GE + D + + V+ A L E
Sbjct: 289 ER-------IGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 340
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 341 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 400
Query: 489 KKKMEAML 496
++ L
Sbjct: 401 ADQLRGYL 408
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|414078407|ref|YP_006997725.1| RpoD family RNA polymerase sigma factor SigA [Anabaena sp. 90]
gi|413971823|gb|AFW95912.1| RpoD family RNA polymerase sigma factor SigA [Anabaena sp. 90]
Length = 391
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------ 243
++ ++ Y++ + LL E + L++KI L L+ + RL ERL R S
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLELERARERLCERLERDPRDSEWAAEVS 139
Query: 244 ---PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 93/243 (38%), Positives = 149/243 (61%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A KLV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 169 AGRKLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 228
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
++Q ++R+L + SRT+RLP H+ E + IR A+ L K G PS++ +AE +NMS K+V
Sbjct: 229 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVKLGREPSMEEVAEEVNMSGKRV 288
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 289 AELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKAESFLLREEIDSM-L 342
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE+I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ KK+
Sbjct: 343 QGLNPREREVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSKKIR 402
Query: 494 AML 496
L
Sbjct: 403 DFL 405
>gi|387879291|ref|YP_006309594.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Streptococcus parasanguinis FW213]
gi|419799044|ref|ZP_14324419.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis
F0449]
gi|385698911|gb|EIG29245.1| RNA polymerase sigma factor RpoD [Streptococcus parasanguinis
F0449]
gi|386792745|gb|AFJ25780.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Streptococcus parasanguinis FW213]
Length = 369
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|392428726|ref|YP_006469737.1| DNA-directed RNA polymerase sigma subunit [Streptococcus
intermedius JTH08]
gi|419776514|ref|ZP_14302436.1| RNA polymerase sigma factor RpoD [Streptococcus intermedius SK54]
gi|423070402|ref|ZP_17059178.1| RNA polymerase sigma factor rpoD [Streptococcus intermedius F0413]
gi|424787717|ref|ZP_18214481.1| RNA polymerase sigma factor RpoD [Streptococcus intermedius BA1]
gi|355365763|gb|EHG13483.1| RNA polymerase sigma factor rpoD [Streptococcus intermedius F0413]
gi|383845925|gb|EID83325.1| RNA polymerase sigma factor RpoD [Streptococcus intermedius SK54]
gi|391757872|dbj|BAM23489.1| DNA-directed RNA polymerase sigma subunit [Streptococcus
intermedius JTH08]
gi|422113471|gb|EKU17209.1| RNA polymerase sigma factor RpoD [Streptococcus intermedius BA1]
Length = 370
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|337281732|ref|YP_004621203.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
parasanguinis ATCC 15912]
gi|335369325|gb|AEH55275.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
parasanguinis ATCC 15912]
Length = 369
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|312195623|ref|YP_004015684.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia sp. EuI1c]
gi|311226959|gb|ADP79814.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EuI1c]
Length = 418
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/310 (33%), Positives = 177/310 (57%), Gaps = 16/310 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSIL 250
+ ++ Y+ + LLT E V L+K+++ GL KL + L LR EL +
Sbjct: 120 DSVRQYLSQIGRVRLLTAEEEVDLAKRVEAGL-FAAEKLAAENGLVGDLRR---ELVWVE 175
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
+ +A+ +LV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K ST
Sbjct: 176 RDGEIAKSRLVEANLRLVVSIARRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 235
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IA+ +++
Sbjct: 236 YATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIAKEMDL 295
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKD 427
+ KVR + + SL+ GE S++ D +++ VD + L
Sbjct: 296 TPDKVREIQKVAQEPISLETPI--------GEEEDSHLGDFIEDSDAVVPVDAASFLLLQ 347
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+ L KL+H
Sbjct: 348 EQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLRHP 407
Query: 487 ARKKKMEAML 496
+R +K+ L
Sbjct: 408 SRSQKLRDYL 417
>gi|323352412|ref|ZP_08087547.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis VMC66]
gi|422853932|ref|ZP_16900596.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK160]
gi|422871253|ref|ZP_16917746.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1087]
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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|400290070|ref|ZP_10792097.1| RNA polymerase sigma factor RpoD [Streptococcus ratti FA-1 = DSM
20564]
gi|399920861|gb|EJN93678.1| RNA polymerase sigma factor RpoD [Streptococcus ratti FA-1 = DSM
20564]
Length = 371
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ + ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGRVFNVTRERIRQIEAKALRKLRHPSRSK 363
Query: 491 KM 492
++
Sbjct: 364 QL 365
>gi|374338234|ref|YP_005094946.1| RNA polymerase sigma factor RpoD [Streptococcus macedonicus ACA-DC
198]
gi|372284346|emb|CCF02612.1| RNA polymerase sigma factor RpoD [Streptococcus macedonicus ACA-DC
198]
Length = 367
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 129 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 188
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++++ KV
Sbjct: 189 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDITPDKV 248
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 249 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 300
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 301 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 359
Query: 491 KM 492
++
Sbjct: 360 QL 361
>gi|422862933|ref|ZP_16909565.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK408]
gi|327473233|gb|EGF18653.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK408]
Length = 370
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|430742509|ref|YP_007201638.1| sigma-70 family RNA polymerase sigma factor [Singulisphaera
acidiphila DSM 18658]
gi|430014229|gb|AGA25943.1| RNA polymerase sigma factor, sigma-70 family [Singulisphaera
acidiphila DSM 18658]
Length = 556
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 95/264 (35%), Positives = 153/264 (57%), Gaps = 14/264 (5%)
Query: 238 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
SLR + S E A+ +L N+RLV+SIA++Y N G DL+Q G GL+R +
Sbjct: 298 SLRNRVEAMNSRFKEYEQAKRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAV 357
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGV 356
+K++ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +RN +K L+EKG
Sbjct: 358 DKYEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVSKKLLQEKGR 417
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVE 413
P+++ A+ N+S ++ R + SLDR GE+ SY D +
Sbjct: 418 EPTIEETAKAANISIEETRRVMKISRHPISLDRPV--------GESEDSYFGDFIEDEAA 469
Query: 414 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 472
+P + LK+++++ ++ TL REREII+L YGL D T E++ + ++RERV
Sbjct: 470 ESPINAATQEMLKEKIDQ-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERV 528
Query: 473 RQVGLVALEKLKHAARKKKMEAML 496
RQ+ A+ KL+H R +++E L
Sbjct: 529 RQIEAKAVRKLQHPVRSRQLEGFL 552
>gi|322385457|ref|ZP_08059101.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
cristatus ATCC 51100]
gi|417921021|ref|ZP_12564516.1| RNA polymerase sigma factor RpoD [Streptococcus cristatus ATCC
51100]
gi|321270195|gb|EFX53111.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
cristatus ATCC 51100]
gi|342834941|gb|EGU69199.1| RNA polymerase sigma factor RpoD [Streptococcus cristatus ATCC
51100]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|422858817|ref|ZP_16905467.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1057]
gi|327458597|gb|EGF04945.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1057]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|239626154|ref|ZP_04669185.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
gi|355682437|ref|ZP_09062447.1| hypothetical protein HMPREF9469_05484 [Clostridium citroniae
WAL-17108]
gi|239520384|gb|EEQ60250.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
gi|354811017|gb|EHE95653.1| hypothetical protein HMPREF9469_05484 [Clostridium citroniae
WAL-17108]
Length = 381
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDKV 264
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 491 KMEAML 496
++ L
Sbjct: 376 RIRDFL 381
>gi|395772635|ref|ZP_10453150.1| RNA polymerase sigma factor [Streptomyces acidiscabies 84-104]
Length = 362
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT E V L+++++ GL ++ L + L S L + +L +++
Sbjct: 66 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAEEKLLNTPD-LDSQLAL---DLDRLVVM 121
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 122 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 181
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A L+++
Sbjct: 182 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAQLDLAP 241
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
+V G+V L +E SL+ GE + D + + V+ A L E
Sbjct: 242 ARV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 293
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 294 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 353
Query: 489 KKKMEAML 496
++ L
Sbjct: 354 ADQLRGYL 361
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 159/260 (61%), Gaps = 13/260 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL I+ + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 169 LSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 228
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L + KG T S
Sbjct: 229 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTAS 288
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
++ IA+ ++M+ +++R + + SL+ + G+ + + D + +P
Sbjct: 289 IEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV--------GKDKDTELGDLLETDDISPE 340
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
+ +L+ E+ +L + L RER++I + +GL D + + I K + LSRERVRQ+
Sbjct: 341 ELIMRESLQQELKQL-LADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIE 399
Query: 477 LVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 400 SKALQKLRQPKRRNRIRDFL 419
>gi|422303174|ref|ZP_16390528.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9806]
gi|389791889|emb|CCI12331.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9806]
Length = 435
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 91/250 (36%), Positives = 158/250 (63%), Gaps = 9/250 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 185 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQMRGRTATVEEI 304
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A+ L ++ + VR + + SL+ + G +T + + ++ H V +
Sbjct: 305 AQELALTPEAVREVLMTVPRSVSLEIKV-----GKEKDTELLDLLETEAVSSENHLVYE- 358
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RER++I L YG LD + + DI + + LSRERVRQ+ L AL+K
Sbjct: 359 SLQRDIREL-LADLTTRERQVIELRYGFLDGKSHSLADIGRTLALSRERVRQIELKALQK 417
Query: 483 LKHAARKKKM 492
L+ + R ++
Sbjct: 418 LRQSGRHHQI 427
>gi|254413477|ref|ZP_05027247.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196179584|gb|EDX74578.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 331
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 176/307 (57%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ +L+ K L E+LG + +S
Sbjct: 23 VRTYLQEIGRVPLLTHEQEILYGKQVQRLNALEQTKESLFEQLGYEPTLCEWAKASSLSE 82
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
ELQS + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 83 AELQSCIRAGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 142
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L + G ++
Sbjct: 143 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQTLGRAATISE 202
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A L+++ K+VR E + SLD G+ + + + ++ P +D
Sbjct: 203 LATELDLTPKQVREYLEKARQPLSLDLRV--------GDNQDTELGELLEDSGP--SPED 252
Query: 423 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+ A++ ++ KL + L E++RE++ L +GL D + +T I ++ +SRERVRQ+
Sbjct: 253 FATYSAMQVDLEKL-MADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIER 311
Query: 478 VALEKLK 484
AL KL+
Sbjct: 312 EALSKLR 318
>gi|422883789|ref|ZP_16930238.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK49]
gi|332362696|gb|EGJ40494.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK49]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|125717671|ref|YP_001034804.1| RNA polymerase sigma factor RpoD [Streptococcus sanguinis SK36]
gi|401682453|ref|ZP_10814346.1| RNA polymerase sigma factor RpoD [Streptococcus sp. AS14]
gi|422821551|ref|ZP_16869744.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK353]
gi|422826022|ref|ZP_16874201.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK678]
gi|422846335|ref|ZP_16893018.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK72]
gi|422848995|ref|ZP_16895671.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK115]
gi|422851953|ref|ZP_16898623.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK150]
gi|422855848|ref|ZP_16902506.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1]
gi|422860474|ref|ZP_16907118.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK330]
gi|422865820|ref|ZP_16912445.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1058]
gi|422876786|ref|ZP_16923256.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1056]
gi|422879189|ref|ZP_16925655.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK1059]
gi|422881954|ref|ZP_16928410.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK355]
gi|422929037|ref|ZP_16961979.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis ATCC 29667]
gi|422932007|ref|ZP_16964938.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK340]
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]
gi|339615462|gb|EGQ20137.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis ATCC 29667]
gi|339618791|gb|EGQ23381.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK340]
gi|400184500|gb|EJO18741.1| RNA polymerase sigma factor RpoD [Streptococcus sp. AS14]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 96/308 (31%), Positives = 177/308 (57%), Gaps = 24/308 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LL+H E +R K+++ +L + + L +LG + I+
Sbjct: 25 VRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEVREELATQLGREPSIEEWAKAANINS 84
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 85 ADLLGAIADGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 144
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G P+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGE 204
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A L ++ K+VR E SLD G+ + + + + + +P +D
Sbjct: 205 LANELELTPKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 423 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ ++ ++ ++++ L +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 255 FVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 314
Query: 479 ALEKLKHA 486
AL KL+ +
Sbjct: 315 ALTKLRKS 322
>gi|357055285|ref|ZP_09116358.1| hypothetical protein HMPREF9467_03330 [Clostridium clostridioforme
2_1_49FAA]
gi|355383039|gb|EHG30127.1| hypothetical protein HMPREF9467_03330 [Clostridium clostridioforme
2_1_49FAA]
Length = 407
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 150/243 (61%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +LV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 170 AGRRLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 229
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
++Q ++R+L + SRT+RLP H+ E + IR A+ L K G PS++ +AE +NMS+K+V
Sbjct: 230 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVKLGREPSMEEVAEEVNMSEKRV 289
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 290 TELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-TNASTEDKAESFLLREEIDSM-L 343
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RER++I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ KK+
Sbjct: 344 QGLNPRERDVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSKKIR 403
Query: 494 AML 496
L
Sbjct: 404 DFL 406
>gi|433603602|ref|YP_007035971.1| RNA polymerase sigma factor SigB [Saccharothrix espanaensis DSM
44229]
gi|407881455|emb|CCH29098.1| RNA polymerase sigma factor SigB [Saccharothrix espanaensis DSM
44229]
Length = 330
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 168/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT AE V L+K+I+ G+ H L S+ R EL++++ + +
Sbjct: 37 YLNGIGKTALLTAAEEVELAKRIEAGV-FAQHMLETGSGPAST---RREELRALVRDGHV 92
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 93 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 152
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + D +A+ ++ KV
Sbjct: 153 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATTDELAKESGLTPAKV 212
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 213 SDLLDHARDPVSLDMPVGAEEDAPLGD----FIEDSDA-TDAESAVISGLLQDDLRR-VL 266
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+ +IRL YGL D + T + I K GLSRERVRQ+ + KL+ R K+
Sbjct: 267 ATLDQREQSVIRLRYGLEDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLRQGERAAKLR 326
Query: 494 A 494
A
Sbjct: 327 A 327
>gi|339640413|ref|ZP_08661857.1| RNA polymerase sigma factor RpoD [Streptococcus sp. oral taxon 056
str. F0418]
gi|339453682|gb|EGP66297.1| RNA polymerase sigma factor RpoD [Streptococcus sp. oral taxon 056
str. F0418]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|456390566|gb|EMF55961.1| hrdA protein [Streptomyces bottropensis ATCC 25435]
Length = 405
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/311 (33%), Positives = 179/311 (57%), Gaps = 22/311 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP---ELQSI 249
+ Y++ + LLT E V L+++++ GL + ERLG++ + +L +
Sbjct: 109 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAE-------ERLGNASDLDTRLALDLDKL 161
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K S
Sbjct: 162 VVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFS 221
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ D +A +L+
Sbjct: 222 TYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDEVAAHLD 281
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LK 426
++ +V +V L +E SL+ GE + D + + V+ A L
Sbjct: 282 LAPGRV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLL 333
Query: 427 DEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+
Sbjct: 334 REHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRD 393
Query: 486 AARKKKMEAML 496
A ++ L
Sbjct: 394 HAFADQLRGYL 404
>gi|334119483|ref|ZP_08493569.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
gi|333458271|gb|EGK86890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
Length = 319
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 100/307 (32%), Positives = 173/307 (56%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ +L K L E LG ++ +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKDILAEELGRDPTAAEWAQAVGLSE 71
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+LQ + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATAAE 191
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 421
+A L ++ K++R LDR P SL+ G+ + + D + + +
Sbjct: 192 LASELELTPKQIRE---------YLDRARLPLSLDLRVGDNQDTELGD--LLEDTGTTPE 240
Query: 422 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D+AL+ + ++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQSSLRTDLDHLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIER 300
Query: 478 VALEKLK 484
AL KL+
Sbjct: 301 EALTKLR 307
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 109/316 (34%), Positives = 174/316 (55%), Gaps = 30/316 (9%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-----------SS 238
++ ++ Y++ + LL E + L++KI L L++ + + G +
Sbjct: 107 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLAD 166
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+ ++R + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 167 MPLTR--FRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 224
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 357
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G
Sbjct: 225 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRK 284
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE--- 413
P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 285 PTEEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADI 334
Query: 414 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 472
NP V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+
Sbjct: 335 ENPEQDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERI 393
Query: 473 RQVGLVALEKLKHAAR 488
RQ+ AL KL+H R
Sbjct: 394 RQIEAKALRKLRHPNR 409
>gi|118472772|ref|YP_887083.1| RNA polymerase sigma factor SigB [Mycobacterium smegmatis str. MC2
155]
gi|399987098|ref|YP_006567447.1| RNA polymerase sigma factor sigB [Mycobacterium smegmatis str. MC2
155]
gi|441207679|ref|ZP_20973619.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
gi|118174059|gb|ABK74955.1| sigma factor SigB [Mycobacterium smegmatis str. MC2 155]
gi|399231659|gb|AFP39152.1| RNA polymerase sigma factor sigB [Mycobacterium smegmatis str. MC2
155]
gi|440627862|gb|ELQ89667.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
Length = 319
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 102/302 (33%), Positives = 171/302 (56%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG + + +LQ+++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTKKRLGEA---RKRDLQAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K + + G + + +AE + +K+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGIPVEKI 201
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN---K 431
+ E SLD +P T + +E++ ++ + + ++ +
Sbjct: 202 NDLLEHSRDPVSLD---------MPVGTDEEAPLGDFIEDSEAMSAENAVISELLHTDIR 252
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ+ + KL++ R
Sbjct: 253 YVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLRNGERAD 312
Query: 491 KM 492
++
Sbjct: 313 RL 314
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|339443528|ref|YP_004709533.1| hypothetical protein CXIVA_24640 [Clostridium sp. SY8519]
gi|338902929|dbj|BAK48431.1| hypothetical protein CXIVA_24640 [Clostridium sp. SY8519]
Length = 435
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 183/318 (57%), Gaps = 26/318 (8%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD-----DHKLRLKERLGSSLRISR 243
I + ++ Y+K + LLT E + L+ K++ G++ D D + +L E L I+
Sbjct: 133 IDDPVRMYLKEIGKVPLLTAEEEIDLAMKMEAGINADKALEEDTENQLSEEEKKQLTITS 192
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
E ++ A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 193 REGEN-------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYR 245
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P +
Sbjct: 246 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEE 305
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 419
IA+ + M ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 306 IAKEMEMPVERVR-------EILKISQEPV-SLETPIGEEQDSHLGDFIQDDNVPVPADA 357
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 478
LK+++ + ++ TL ERE++++RL +GLD T E++ K ++RER+RQ+
Sbjct: 358 AAFTLLKEQLVE-VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAK 416
Query: 479 ALEKLKHAARKKKMEAML 496
AL KL+H +R +K++ L
Sbjct: 417 ALRKLRHPSRSRKLKDYL 434
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 109/309 (35%), Positives = 178/309 (57%), Gaps = 26/309 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQ 247
+ +K Y+K + LLT E V L+K+I+ GL + E+L RIS R EL
Sbjct: 166 DPVKDYLKQIGKVSLLTAGEEVELAKRIEAGLFAE-------EKLAKGGRISPKMREELD 218
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
I+++ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK
Sbjct: 219 WIVVDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFK 278
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEY 366
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A+
Sbjct: 279 FSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDELAKE 338
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDD 422
L+M+ +KV +V RE SL+ GE S D +E++ P V
Sbjct: 339 LDMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAIVPADAVSF 389
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ +
Sbjct: 390 TLLQEQLHA-VLDTLSERESGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 448
Query: 482 KLKHAARKK 490
KL+H +R +
Sbjct: 449 KLRHPSRSQ 457
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 97/244 (39%), Positives = 142/244 (58%), Gaps = 15/244 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 219 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 278
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 279 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 338
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNPWHGVDDWAL 425
M+ +K+R F P SL G+ S + D NP V L
Sbjct: 339 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDTENPEQDVAKNLL 389
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 484
++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+
Sbjct: 390 REDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLR 448
Query: 485 HAAR 488
H R
Sbjct: 449 HPNR 452
>gi|422823913|ref|ZP_16872101.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK405]
gi|324993240|gb|EGC25160.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
sanguinis SK405]
Length = 370
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>gi|354567212|ref|ZP_08986382.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353543513|gb|EHC12971.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 393
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 178/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL+++L +++
Sbjct: 82 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQQQLEREPQYSEWAEAVQ 141
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 LPLPQFRHRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 261
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 262 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 311
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 312 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 370
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 371 IEAKALRKLRHPNR 384
>gi|408825995|ref|ZP_11210885.1| RNA polymerase sigma factor [Streptomyces somaliensis DSM 40738]
Length = 363
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 109/320 (34%), Positives = 180/320 (56%), Gaps = 28/320 (8%)
Query: 175 NGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR---L 231
+G+ + +P+L + Y+ + LLT AE V L+++I+ GL ++ R L
Sbjct: 54 HGAADRTAAPTPDLFRQ----YLGEIGRIPLLTAAEEVELARRIEAGLFAEEKLARTPDL 109
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
RL +L ++++ A+ +L+ +N+RLV+SIA+RY G + DLVQ G +
Sbjct: 110 DSRLAG-------DLDTLVVRGRTAKRRLIEANLRLVVSIAKRYAGRGLTLPDLVQEGNL 162
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLR 350
GL+R +EKFD +GFK STY WWIRQ +SRAL + +RT+R+P H+ E + ++R +
Sbjct: 163 GLIRAVEKFDHERGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRRI 222
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG--ETHHSYIA 408
L+E G P+ + +A +L + ++V G+V L +E SL+ G +T +
Sbjct: 223 LQEHGREPTAEEVAAHLGLPPERV-------GEVLRLAQEPV-SLHAPVGGEDTALGDLI 274
Query: 409 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
++ +P L+ + ++ TLGERERE+++L YGL D T E+I + G+
Sbjct: 275 EDGDAASPVESAAFLLLRQHLEA-VLCTLGEREREVVQLRYGLVDGRPRTLEEIGRLFGV 333
Query: 468 SRERVRQVGLVALEKLK-HA 486
+RER+RQ+ L KL+ HA
Sbjct: 334 TRERIRQIESNTLGKLRAHA 353
>gi|434400420|ref|YP_007134424.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
gi|428271517|gb|AFZ37458.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
Length = 372
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 173/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + R+ +RL +
Sbjct: 61 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERMADRLERYPSDAEWAEEVN 120
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 121 MRLPEFRRRLFYGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 180
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 181 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 240
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 241 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 290
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 291 PEDQVSKSLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 349
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 350 IEAKALRKLRHPNR 363
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 182/315 (57%), Gaps = 28/315 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ L + K +L +RLG + +S
Sbjct: 12 VRTYLREIGRVPLLTHEQEILYGKQVQQSAILQEGKEKLAKRLGREPSYAEWAENAGVSL 71
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ L + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 KELKQALEDGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L ++ G ++
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRSLAQDLGRAATIAE 191
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 421
+A+ L+++ K++R L+R P SL+ G+ + + D + + +
Sbjct: 192 LADELDLNPKQIRE---------YLERARLPLSLDLRVGDNQDTELGD--LLEDDGASPE 240
Query: 422 DWALKDEVN---KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 477
D+AL+ + ++++ L +++R+++ L +GL+ + +T I R+ +SRERVRQ+
Sbjct: 241 DYALQSSMRSDLEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQIER 300
Query: 478 VALEKLKHAARKKKM 492
AL KL+ RK+ M
Sbjct: 301 EALTKLRK--RKQDM 313
>gi|434393235|ref|YP_007128182.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
gi|428265076|gb|AFZ31022.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
Length = 390
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 177/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L ++ + RL E+L +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLEMERVRERLLEQLDREPQDSEWAEAVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LSLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKSLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>gi|359462714|ref|ZP_09251277.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 331
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 181/317 (57%), Gaps = 28/317 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-----------SSLRISRP 244
Y++ + LLT + ++L ++++T + L+ K +L + G + L I+
Sbjct: 27 YLRDIGRSPLLTPEQELQLGREVQTMVRLEAVKDQLAQSCGEEPSMETWTKAADLEIA-- 84
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
ELQ++L + A++K++ +N+RLV++IA++Y + ++ DL+Q G +GL R EK+D +
Sbjct: 85 ELQTLLEKGHKAKQKMITANLRLVVTIAKKYRDRNLELLDLIQEGTLGLERAAEKYDPQR 144
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRI 363
GF+ STY YWWIRQG++RA+ E RT+RLP HL E L I+ + L + G +P+ +
Sbjct: 145 GFRFSTYAYWWIRQGITRAIAEQGRTIRLPIHLTEALNKIKRTQRELSQSLGRSPTTAEV 204
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A+ L+++ +KV+ S+D + G+ S I D +++P V
Sbjct: 205 AQALSLTPEKVQQYLHCAHHTLSIDLKI--------GDDQDSSIVDFIEAPDSSPEKFVS 256
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
D L + + ++++ TL ++RE++ L YGL D LT + +R+ +SRERVRQ+ AL
Sbjct: 257 DKTLSESL-QMLLATLTPQQREVLTLRYGLIDGRELTLAAVGRRMDISRERVRQLQNAAL 315
Query: 481 EKLKHAARKKKMEAMLV 497
+L+ RK ++ LV
Sbjct: 316 SQLQK--RKPEIADYLV 330
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/316 (34%), Positives = 174/316 (55%), Gaps = 30/316 (9%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-----------SS 238
++ ++ Y++ + LL E + L++KI L L++ + + G +
Sbjct: 107 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLAD 166
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+ ++R + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 167 MPLAR--FRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 224
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 357
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G
Sbjct: 225 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRK 284
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE--- 413
P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 285 PTEEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADI 334
Query: 414 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 472
NP V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+
Sbjct: 335 ENPEQDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERI 393
Query: 473 RQVGLVALEKLKHAAR 488
RQ+ AL KL+H R
Sbjct: 394 RQIEAKALRKLRHPNR 409
>gi|256396128|ref|YP_003117692.1| RpoD subfamily RNA polymerase sigma-70 subunit [Catenulispora
acidiphila DSM 44928]
gi|256362354|gb|ACU75851.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora
acidiphila DSM 44928]
Length = 390
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 108/298 (36%), Positives = 173/298 (58%), Gaps = 20/298 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL V L++ ++ GL + KL + L LR EL +++E
Sbjct: 94 FRQYLREIGRVPLLNAVLEVELAQAVEAGL-FAEEKLTFQTHLKPQLR---RELAILVLE 149
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+SIA+RY G + DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 150 GQAAKRRLIEANLRLVVSIAKRYLGRGMSILDLVQEGNLGLIRAVEKFDYTRGYKFSTYA 209
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E GV P+ D IAE L +
Sbjct: 210 TWWIRQAMSRALADQARTIRVPVHVVELMNRVVRLQRRLLQENGVEPTPDDIAEVLGV-- 267
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
A E + +V L +E SL+ GE + D +E+ +P V L++
Sbjct: 268 -----AVERVVEVLRLAQEPV-SLHAPVGEEDDVALGD-LIEDADAVSPADSVAVVMLRE 320
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
++ L + TLGERE+ +++L YGL D + T E+I + G++RER+RQ+ L KL+
Sbjct: 321 HLDAL-LSTLGEREKRVVQLRYGLTDGQPHTLEEIGRTFGVTRERIRQIEAKTLAKLR 377
>gi|363899334|ref|ZP_09325843.1| hypothetical protein HMPREF9625_00503 [Oribacterium sp. ACB1]
gi|395208255|ref|ZP_10397496.1| RNA polymerase sigma factor RpoD [Oribacterium sp. ACB8]
gi|361958374|gb|EHL11673.1| hypothetical protein HMPREF9625_00503 [Oribacterium sp. ACB1]
gi|394705836|gb|EJF13360.1| RNA polymerase sigma factor RpoD [Oribacterium sp. ACB8]
Length = 385
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+M+++KV
Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 268 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLSPEGNVESVMLREHIDS 319
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L+ L ERER++I L +GL D T E++ + ++RER+RQ+ AL KL++ R K
Sbjct: 320 LLD-DLKERERQVIVLRFGLEDGHPRTLEEVGREFNVTRERIRQIEAKALRKLRNPVRSK 378
Query: 491 KMEAML 496
++ L
Sbjct: 379 RIRDFL 384
>gi|359462082|ref|ZP_09250645.1| RNA polymerase sigma factor SigC [Acaryochloris sp. CCMEE 5410]
Length = 423
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 159/260 (61%), Gaps = 13/260 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL I+ + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 169 LSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 228
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L + KG T S
Sbjct: 229 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTAS 288
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
++ IA+ ++M+ +++R + + SL+ + G+ + + D + +P
Sbjct: 289 IEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV--------GKDKDTELGDLLETDDISPE 340
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
+ +L+ E+ +L + L RER++I + +GL D + + I K + LSRERVRQ+
Sbjct: 341 ELIMRESLQHELKQL-LADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIE 399
Query: 477 LVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 400 SKALQKLRQPKRRNRIRDFL 419
>gi|372325327|ref|ZP_09519916.1| RpoD-like RNA polymerase sigma factor [Oenococcus kitaharae DSM
17330]
gi|366984135|gb|EHN59534.1| RpoD-like RNA polymerase sigma factor [Oenococcus kitaharae DSM
17330]
Length = 451
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 213 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 272
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 273 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 332
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 333 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 385
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 386 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 445
Query: 493 EAML 496
+ +
Sbjct: 446 KDFM 449
>gi|154484558|ref|ZP_02027006.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC
27560]
gi|149734406|gb|EDM50323.1| RNA polymerase sigma factor RpoD [Eubacterium ventriosum ATCC
27560]
Length = 429
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 95/247 (38%), Positives = 152/247 (61%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+EKL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 190 VAKEKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 249
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 373
WIRQ V+RAL +++RT+R+P H+ E + + + +L E G PS +A L+M+++K
Sbjct: 250 WIRQSVTRALADHARTIRVPVHMVETINRMSKMQRKLTLELGYEPSTKELATALDMTEEK 309
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 430
V ++ + RE SL GE S + D +NN P ++ L++ ++
Sbjct: 310 VL-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNTVTPEANIESVMLREHID 361
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+++ L +RERE+I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 362 -VLLQDLKDREREVIILRFGLRDGHPRTLEEVGKIFNVTRERIRQIEAKALRKLRNPVRS 420
Query: 490 KKMEAML 496
KK++ L
Sbjct: 421 KKIKDFL 427
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------ 243
++ ++ Y++ + LL E + L++KI L L+ + RL E+L R S
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQ 137
Query: 244 ---PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>gi|419523750|ref|ZP_14063327.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA13723]
gi|421234075|ref|ZP_15690696.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2061617]
gi|421249381|ref|ZP_15705841.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2082239]
gi|379556925|gb|EHZ21973.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA13723]
gi|395601831|gb|EJG61977.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2061617]
gi|395614002|gb|EJG74024.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2082239]
Length = 369
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|333904769|ref|YP_004478640.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis KCTC
11537]
gi|333120034|gb|AEF24968.1| RNA polymerase sigma factor RpoD [Streptococcus parauberis KCTC
11537]
Length = 269
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 31 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 90
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 91 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 150
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 151 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 202
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 203 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 261
Query: 491 KM 492
++
Sbjct: 262 QL 263
>gi|47679387|gb|AAT36674.1| DNA-directed RNA polymerase sigma A subunit [Oenococcus oeni PSU-1]
Length = 465
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 227 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 286
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 287 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 346
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 347 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 399
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 400 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 459
Query: 493 EAML 496
+ +
Sbjct: 460 KDFM 463
>gi|427705875|ref|YP_007048252.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427358380|gb|AFY41102.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 391
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR------ 243
++ ++ Y++ + LL E + L++KI L L+ + RL E+L R S
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQ 139
Query: 244 ---PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/319 (34%), Positives = 177/319 (55%), Gaps = 31/319 (9%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS----------- 238
++ ++ Y++ + LL E + L++KI L ++ + RL + LG +
Sbjct: 102 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLEMERVRDRLCQELGCTAEELERNPEPW 161
Query: 239 ---LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
L ++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 162 AKELGMTVPAFRHRLFVGRKAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 221
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 354
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E
Sbjct: 222 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEM 281
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 413
G P+ + IA+ + M+ +K+R F P SL G+ S + D +E
Sbjct: 282 GRKPTEEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 331
Query: 414 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
++ P V L++++ + ++ TL RER++++L YGLD + T E+I + ++R
Sbjct: 332 SDGETPEDQVSKHLLREDL-ETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTR 390
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 391 ERIRQIEAKALRKLRHPNR 409
>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 RpoD [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|387626407|ref|YP_006062582.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV104]
gi|387757457|ref|YP_006064436.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae OXC141]
gi|387759446|ref|YP_006066424.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae INV200]
gi|387788245|ref|YP_006253313.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ST556]
gi|405761187|ref|YP_006701783.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPNA45]
gi|410476522|ref|YP_006743281.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
pneumoniae gamPNI0373]
gi|415698415|ref|ZP_11457188.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 459-5]
gi|415749469|ref|ZP_11477413.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae SV35]
gi|415752154|ref|ZP_11479265.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae SV36]
gi|417312664|ref|ZP_12099376.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA04375]
gi|417676832|ref|ZP_12326242.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17545]
gi|417679052|ref|ZP_12328449.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17570]
gi|417686552|ref|ZP_12335829.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41301]
gi|417693993|ref|ZP_12343181.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47901]
gi|417696280|ref|ZP_12345459.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47368]
gi|417698503|ref|ZP_12347675.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41317]
gi|418073861|ref|ZP_12711118.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11184]
gi|418076231|ref|ZP_12713470.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47502]
gi|418078565|ref|ZP_12715788.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 4027-06]
gi|418080533|ref|ZP_12717745.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6735-05]
gi|418082994|ref|ZP_12720195.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44288]
gi|418085136|ref|ZP_12722320.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47281]
gi|418086798|ref|ZP_12723968.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47033]
gi|418089468|ref|ZP_12726625.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43265]
gi|418091579|ref|ZP_12728722.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44452]
gi|418093916|ref|ZP_12731045.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49138]
gi|418096178|ref|ZP_12733293.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16531]
gi|418098442|ref|ZP_12735541.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6901-05]
gi|418100897|ref|ZP_12737982.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7286-06]
gi|418102820|ref|ZP_12739894.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP070]
gi|418105149|ref|ZP_12742207.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44500]
gi|418107497|ref|ZP_12744535.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41410]
gi|418110059|ref|ZP_12747083.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49447]
gi|418112423|ref|ZP_12749425.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41538]
gi|418114571|ref|ZP_12751560.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5787-06]
gi|418116808|ref|ZP_12753779.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6963-05]
gi|418119610|ref|ZP_12756562.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA18523]
gi|418121135|ref|ZP_12758081.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44194]
gi|418123345|ref|ZP_12760279.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44378]
gi|418125724|ref|ZP_12762633.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44511]
gi|418127932|ref|ZP_12764828.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP170]
gi|418130238|ref|ZP_12767122.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07643]
gi|418132899|ref|ZP_12769772.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11304]
gi|418135135|ref|ZP_12771992.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11426]
gi|418137110|ref|ZP_12773952.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11663]
gi|418139606|ref|ZP_12776432.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13338]
gi|418141674|ref|ZP_12778487.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13455]
gi|418143915|ref|ZP_12780715.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13494]
gi|418146293|ref|ZP_12783075.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13637]
gi|418148497|ref|ZP_12785262.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13856]
gi|418150541|ref|ZP_12787291.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA14798]
gi|418152825|ref|ZP_12789565.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16121]
gi|418155080|ref|ZP_12791811.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16242]
gi|418157427|ref|ZP_12794143.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16833]
gi|418159728|ref|ZP_12796427.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17227]
gi|418162133|ref|ZP_12798819.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17328]
gi|418164345|ref|ZP_12801017.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17371]
gi|418166723|ref|ZP_12803379.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17971]
gi|418169698|ref|ZP_12806339.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19077]
gi|418171278|ref|ZP_12807904.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19451]
gi|418173449|ref|ZP_12810063.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41277]
gi|418175895|ref|ZP_12812491.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41437]
gi|418178111|ref|ZP_12814695.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41565]
gi|418180479|ref|ZP_12817049.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41688]
gi|418182716|ref|ZP_12819277.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43380]
gi|418184876|ref|ZP_12821423.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47283]
gi|418187083|ref|ZP_12823611.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47360]
gi|418189320|ref|ZP_12825835.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47373]
gi|418191641|ref|ZP_12828145.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47388]
gi|418193707|ref|ZP_12830199.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47439]
gi|418195310|ref|ZP_12831790.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47688]
gi|418197895|ref|ZP_12834357.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47778]
gi|418200092|ref|ZP_12836537.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47976]
gi|418202337|ref|ZP_12838767.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA52306]
gi|418214275|ref|ZP_12841010.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA54644]
gi|418216524|ref|ZP_12843248.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
Netherlands15B-37]
gi|418218828|ref|ZP_12845495.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP127]
gi|418221142|ref|ZP_12847796.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47751]
gi|418223147|ref|ZP_12849788.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5185-06]
gi|418225482|ref|ZP_12852111.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP112]
gi|418227672|ref|ZP_12854290.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 3063-00]
gi|418229820|ref|ZP_12856425.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP01]
gi|418232142|ref|ZP_12858729.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07228]
gi|418234291|ref|ZP_12860870.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA08780]
gi|418238650|ref|ZP_12865205.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
NorthCarolina6A-23]
gi|419422883|ref|ZP_13963098.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43264]
gi|419425094|ref|ZP_13965292.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7533-05]
gi|419427045|ref|ZP_13967228.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5652-06]
gi|419429224|ref|ZP_13969391.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11856]
gi|419431441|ref|ZP_13971584.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP05]
gi|419434196|ref|ZP_13974313.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40183]
gi|419435936|ref|ZP_13976028.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 8190-05]
gi|419438169|ref|ZP_13978239.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13499]
gi|419440358|ref|ZP_13980407.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40410]
gi|419442644|ref|ZP_13982672.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13224]
gi|419444717|ref|ZP_13984732.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19923]
gi|419446857|ref|ZP_13986862.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7879-04]
gi|419448706|ref|ZP_13988703.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 4075-00]
gi|419451407|ref|ZP_13991393.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP02]
gi|419453382|ref|ZP_13993355.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP03]
gi|419455468|ref|ZP_13995428.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP04]
gi|419457469|ref|ZP_13997414.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02254]
gi|419459920|ref|ZP_13999852.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02270]
gi|419462238|ref|ZP_14002148.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02714]
gi|419464494|ref|ZP_14004387.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA04175]
gi|419466497|ref|ZP_14006380.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA05248]
gi|419468937|ref|ZP_14008808.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA06083]
gi|419471022|ref|ZP_14010881.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07914]
gi|419473139|ref|ZP_14012990.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13430]
gi|419475467|ref|ZP_14015307.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA14688]
gi|419477736|ref|ZP_14017561.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA18068]
gi|419479915|ref|ZP_14019722.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19101]
gi|419482089|ref|ZP_14021882.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40563]
gi|419484042|ref|ZP_14023818.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43257]
gi|419486622|ref|ZP_14026387.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44128]
gi|419488832|ref|ZP_14028582.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44386]
gi|419490982|ref|ZP_14030722.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47179]
gi|419493277|ref|ZP_14033003.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47210]
gi|419495396|ref|ZP_14035114.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47461]
gi|419497256|ref|ZP_14036966.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47522]
gi|419499610|ref|ZP_14039307.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47597]
gi|419501821|ref|ZP_14041506.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47628]
gi|419503880|ref|ZP_14043549.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47760]
gi|419506010|ref|ZP_14045671.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49194]
gi|419508165|ref|ZP_14047818.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49542]
gi|419510671|ref|ZP_14050314.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP141]
gi|419512449|ref|ZP_14052083.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA05578]
gi|419514807|ref|ZP_14054432.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
England14-9]
gi|419516719|ref|ZP_14056337.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA02506]
gi|419518861|ref|ZP_14058468.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA08825]
gi|419520980|ref|ZP_14060576.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA05245]
gi|419525823|ref|ZP_14065386.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA14373]
gi|419528485|ref|ZP_14068027.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17719]
gi|419530319|ref|ZP_14069848.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA40028]
gi|419532309|ref|ZP_14071825.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA47794]
gi|419534554|ref|ZP_14074056.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17457]
gi|421206519|ref|ZP_15663579.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2090008]
gi|421208893|ref|ZP_15665914.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070005]
gi|421211172|ref|ZP_15668155.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070035]
gi|421213142|ref|ZP_15670102.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070108]
gi|421215276|ref|ZP_15672203.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070109]
gi|421217638|ref|ZP_15674538.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070335]
gi|421220241|ref|ZP_15677090.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070425]
gi|421223416|ref|ZP_15680193.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070531]
gi|421224940|ref|ZP_15681683.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070768]
gi|421227248|ref|ZP_15683955.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2072047]
gi|421229709|ref|ZP_15686380.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2061376]
gi|421236202|ref|ZP_15692801.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2071004]
gi|421238721|ref|ZP_15695288.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2071247]
gi|421240626|ref|ZP_15697172.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2080913]
gi|421243016|ref|ZP_15699536.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2081074]
gi|421244887|ref|ZP_15701388.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2081685]
gi|421247336|ref|ZP_15703822.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2082170]
gi|421266100|ref|ZP_15716983.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR27]
gi|421268385|ref|ZP_15719255.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR95]
gi|421270434|ref|ZP_15721290.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR48]
gi|421273254|ref|ZP_15724094.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR55]
gi|421275835|ref|ZP_15726662.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA52612]
gi|421278869|ref|ZP_15729677.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17301]
gi|421281055|ref|ZP_15731853.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA04672]
gi|421283245|ref|ZP_15734032.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA04216]
gi|421285498|ref|ZP_15736275.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60190]
gi|421288189|ref|ZP_15738952.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58771]
gi|421289683|ref|ZP_15740434.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA54354]
gi|421291934|ref|ZP_15742672.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA56348]
gi|421294270|ref|ZP_15744993.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA56113]
gi|421295769|ref|ZP_15746481.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58581]
gi|421298517|ref|ZP_15749205.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60080]
gi|421300958|ref|ZP_15751628.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA19998]
gi|421303271|ref|ZP_15753935.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA17484]
gi|421305001|ref|ZP_15755657.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA62331]
gi|421307337|ref|ZP_15757981.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60132]
gi|421309510|ref|ZP_15760137.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA62681]
gi|421311869|ref|ZP_15762474.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58981]
gi|421314242|ref|ZP_15764832.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA47562]
gi|444383022|ref|ZP_21181218.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PCS8106]
gi|444384875|ref|ZP_21182966.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PCS8203]
gi|444388512|ref|ZP_21186494.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS125219]
gi|444389794|ref|ZP_21187709.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS70012]
gi|444391855|ref|ZP_21189649.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS81218]
gi|444395512|ref|ZP_21193056.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0002]
gi|444397536|ref|ZP_21195019.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0006]
gi|444399356|ref|ZP_21196822.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0007]
gi|444403057|ref|ZP_21200177.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0008]
gi|444404639|ref|ZP_21201587.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0009]
gi|444408751|ref|ZP_21205384.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0010]
gi|444410877|ref|ZP_21207387.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0076]
gi|444414462|ref|ZP_21210727.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0199]
gi|444417379|ref|ZP_21213424.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0360]
gi|444419718|ref|ZP_21215560.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0427]
gi|444422542|ref|ZP_21218194.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0446]
gi|61234224|sp|P0A4I9.1|RPOD_STRPN RecName: Full=RNA polymerase sigma factor RpoD
gi|61234230|sp|P0A4J0.1|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]
gi|353747756|gb|EHD28412.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 4027-06]
gi|353750020|gb|EHD30663.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47502]
gi|353750270|gb|EHD30911.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11184]
gi|353753073|gb|EHD33697.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6735-05]
gi|353756907|gb|EHD37506.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44288]
gi|353758831|gb|EHD39419.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47281]
gi|353759059|gb|EHD39645.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47033]
gi|353762154|gb|EHD42717.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43265]
gi|353765257|gb|EHD45804.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44452]
gi|353765792|gb|EHD46334.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49138]
gi|353769802|gb|EHD50318.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6901-05]
gi|353771165|gb|EHD51676.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16531]
gi|353771576|gb|EHD52084.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7286-06]
gi|353775453|gb|EHD55933.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP070]
gi|353777214|gb|EHD57687.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44500]
gi|353779680|gb|EHD60144.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41410]
gi|353782684|gb|EHD63115.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49447]
gi|353784289|gb|EHD64710.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41538]
gi|353786931|gb|EHD67341.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5787-06]
gi|353789637|gb|EHD70030.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA18523]
gi|353789785|gb|EHD70177.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 6963-05]
gi|353793962|gb|EHD74321.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44194]
gi|353797197|gb|EHD77533.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44511]
gi|353797432|gb|EHD77767.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44378]
gi|353800393|gb|EHD80707.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP170]
gi|353803530|gb|EHD83822.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07643]
gi|353805925|gb|EHD86199.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13455]
gi|353806855|gb|EHD87128.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11304]
gi|353809656|gb|EHD89916.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13494]
gi|353813172|gb|EHD93405.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13856]
gi|353815089|gb|EHD95311.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13637]
gi|353815673|gb|EHD95888.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA14798]
gi|353819470|gb|EHD99668.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16121]
gi|353821461|gb|EHE01637.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17227]
gi|353823372|gb|EHE03547.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16242]
gi|353823875|gb|EHE04049.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA16833]
gi|353828176|gb|EHE08319.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17328]
gi|353830319|gb|EHE10449.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17971]
gi|353831622|gb|EHE11747.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA17371]
gi|353833677|gb|EHE13785.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19077]
gi|353836010|gb|EHE16099.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19451]
gi|353840148|gb|EHE20222.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41277]
gi|353842001|gb|EHE22051.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41437]
gi|353844885|gb|EHE24928.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41565]
gi|353845181|gb|EHE25223.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA41688]
gi|353850953|gb|EHE30957.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43380]
gi|353851412|gb|EHE31408.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47283]
gi|353852313|gb|EHE32302.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47360]
gi|353856462|gb|EHE36431.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47373]
gi|353857542|gb|EHE37505.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47388]
gi|353859687|gb|EHE39637.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47439]
gi|353861837|gb|EHE41770.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47688]
gi|353863635|gb|EHE43557.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47778]
gi|353865139|gb|EHE45048.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47976]
gi|353868140|gb|EHE48030.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA52306]
gi|353871558|gb|EHE51429.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA54644]
gi|353873575|gb|EHE53436.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
Netherlands15B-37]
gi|353875483|gb|EHE55335.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP127]
gi|353876065|gb|EHE55915.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47751]
gi|353879273|gb|EHE59099.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5185-06]
gi|353881900|gb|EHE61712.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 3063-00]
gi|353882790|gb|EHE62601.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP112]
gi|353886869|gb|EHE66649.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07228]
gi|353888536|gb|EHE68310.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA08780]
gi|353888718|gb|EHE68491.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP01]
gi|353894400|gb|EHE74142.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
NorthCarolina6A-23]
gi|353901737|gb|EHE77269.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11663]
gi|353902372|gb|EHE77902.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11426]
gi|353905079|gb|EHE80518.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13338]
gi|379137987|gb|AFC94778.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae ST556]
gi|379532467|gb|EHY97696.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02254]
gi|379532498|gb|EHY97726.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02270]
gi|379533084|gb|EHY98307.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA02714]
gi|379538174|gb|EHZ03355.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13499]
gi|379539713|gb|EHZ04892.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA04175]
gi|379539994|gb|EHZ05171.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA05245]
gi|379544620|gb|EHZ09764.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA05248]
gi|379545738|gb|EHZ10877.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA07914]
gi|379547040|gb|EHZ12178.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA06083]
gi|379551172|gb|EHZ16267.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA11856]
gi|379551945|gb|EHZ17036.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13224]
gi|379552646|gb|EHZ17735.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA13430]
gi|379558516|gb|EHZ23550.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA14373]
gi|379561012|gb|EHZ26033.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA14688]
gi|379564508|gb|EHZ29504.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17719]
gi|379565077|gb|EHZ30071.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17457]
gi|379567118|gb|EHZ32105.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA18068]
gi|379571081|gb|EHZ36040.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19101]
gi|379572410|gb|EHZ37367.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19923]
gi|379573838|gb|EHZ38785.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA40028]
gi|379575580|gb|EHZ40510.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40183]
gi|379579499|gb|EHZ44405.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40410]
gi|379580963|gb|EHZ45852.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA40563]
gi|379583553|gb|EHZ48430.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43257]
gi|379587255|gb|EHZ52104.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44128]
gi|379587409|gb|EHZ52257.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA43264]
gi|379587725|gb|EHZ52572.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA44386]
gi|379593452|gb|EHZ58264.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47210]
gi|379594561|gb|EHZ59371.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47179]
gi|379595478|gb|EHZ60286.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47461]
gi|379601056|gb|EHZ65833.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47628]
gi|379601249|gb|EHZ66025.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47522]
gi|379601380|gb|EHZ66155.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47597]
gi|379606093|gb|EHZ70842.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA47794]
gi|379606557|gb|EHZ71304.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA47760]
gi|379607924|gb|EHZ72670.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49194]
gi|379611883|gb|EHZ76605.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA49542]
gi|379614397|gb|EHZ79107.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7879-04]
gi|379615778|gb|EHZ80483.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 8190-05]
gi|379618498|gb|EHZ83173.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 5652-06]
gi|379619981|gb|EHZ84647.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 7533-05]
gi|379623112|gb|EHZ87746.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP02]
gi|379623764|gb|EHZ88397.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 4075-00]
gi|379627091|gb|EHZ91707.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP03]
gi|379629925|gb|EHZ94519.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP04]
gi|379630533|gb|EHZ95118.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae EU-NP05]
gi|379632724|gb|EHZ97296.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae NP141]
gi|379635356|gb|EHZ99914.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae
England14-9]
gi|379636919|gb|EIA01477.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA05578]
gi|379640722|gb|EIA05261.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA02506]
gi|379641840|gb|EIA06375.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA08825]
gi|381309850|gb|EIC50683.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae SV36]
gi|381317067|gb|EIC57803.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 459-5]
gi|381317763|gb|EIC58488.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae SV35]
gi|395573130|gb|EJG33721.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070035]
gi|395575231|gb|EJG35801.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070005]
gi|395576158|gb|EJG36716.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2090008]
gi|395580292|gb|EJG40778.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070108]
gi|395580763|gb|EJG41237.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070109]
gi|395584072|gb|EJG44484.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070335]
gi|395585875|gb|EJG46253.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070531]
gi|395588245|gb|EJG48578.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070425]
gi|395590418|gb|EJG50725.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2070768]
gi|395595745|gb|EJG55972.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2072047]
gi|395596117|gb|EJG56340.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2061376]
gi|395601984|gb|EJG62129.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2071247]
gi|395603169|gb|EJG63309.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2071004]
gi|395608417|gb|EJG68511.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2080913]
gi|395609209|gb|EJG69298.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2081074]
gi|395609387|gb|EJG69474.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2081685]
gi|395614157|gb|EJG74178.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2082170]
gi|395868229|gb|EJG79347.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR48]
gi|395868836|gb|EJG79953.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR27]
gi|395869880|gb|EJG80994.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR95]
gi|395872255|gb|EJG83354.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA52612]
gi|395873685|gb|EJG84775.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPAR55]
gi|395880302|gb|EJG91355.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae GA17301]
gi|395881208|gb|EJG92257.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA04216]
gi|395882216|gb|EJG93263.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA04672]
gi|395886752|gb|EJG97768.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58771]
gi|395887477|gb|EJG98492.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60190]
gi|395888924|gb|EJG99934.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA54354]
gi|395894151|gb|EJH05132.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA56348]
gi|395894560|gb|EJH05540.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA56113]
gi|395896982|gb|EJH07946.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58581]
gi|395898518|gb|EJH09462.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA19998]
gi|395901893|gb|EJH12829.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA17484]
gi|395902473|gb|EJH13406.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60080]
gi|395905663|gb|EJH16568.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA62331]
gi|395907944|gb|EJH18829.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA60132]
gi|395910931|gb|EJH21800.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA62681]
gi|395911258|gb|EJH22126.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA58981]
gi|395914742|gb|EJH25586.1| RNA polymerase sigma factor [Streptococcus pneumoniae GA47562]
gi|404278076|emb|CCM08653.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae SPNA45]
gi|406369467|gb|AFS43157.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
pneumoniae gamPNI0373]
gi|429316082|emb|CCP35741.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
SPN034156]
gi|429319426|emb|CCP32694.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
SPN034183]
gi|429321242|emb|CCP34668.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
SPN994039]
gi|429323062|emb|CCP30709.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
SPN994038]
gi|444249185|gb|ELU55679.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS125219]
gi|444250715|gb|ELU57192.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PCS8106]
gi|444251635|gb|ELU58104.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PCS8203]
gi|444256257|gb|ELU62595.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS70012]
gi|444258155|gb|ELU64485.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0002]
gi|444260193|gb|ELU66501.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0006]
gi|444264512|gb|ELU70582.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae
PCS81218]
gi|444265317|gb|ELU71333.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0008]
gi|444268789|gb|ELU74619.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0007]
gi|444269578|gb|ELU75385.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0010]
gi|444276345|gb|ELU81909.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0076]
gi|444276449|gb|ELU82006.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0009]
gi|444281921|gb|ELU87212.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0199]
gi|444284030|gb|ELU89198.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0360]
gi|444286256|gb|ELU91249.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0427]
gi|444288132|gb|ELU93033.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0446]
Length = 369
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 174/310 (56%), Gaps = 18/310 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG--SSLR------- 240
++ ++ Y++ + LL E + L++KI L L++ + + G S+R
Sbjct: 83 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 142
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 143 MPLPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 202
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 203 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 262
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 263 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 316
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 478
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 317 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 375
Query: 479 ALEKLKHAAR 488
AL KL+H R
Sbjct: 376 ALRKLRHPNR 385
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 175/314 (55%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + ELLT E V L+++I+ G
Sbjct: 101 INDPVRMYLKEIGRVELLTADEEVSLAQRIEQG--------------------------- 133
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 134 ----DPVAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYHKGFKF 189
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +
Sbjct: 190 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEM 249
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR+ + + +E SL GE S++ D +E++ DD+
Sbjct: 250 DLPTEKVRD-------ILKIAQEPV-SLETPIGEEDDSHLGDF-IEDHDATSPDDYTSAE 300
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++N+ ++ TL +RE ++RL +GL D + T E + ++ G++RER+RQ+ AL K
Sbjct: 301 LLKEQLNE-VLDTLTDREENVLRLRFGLEDGQSKTLEQVGQQFGVTRERIRQIEAKALRK 359
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ L
Sbjct: 360 LRHPSRSKQLKDFL 373
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 115/333 (34%), Positives = 182/333 (54%), Gaps = 27/333 (8%)
Query: 173 QQNGSKQLRSM-ISPELI--QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
Q+ K L S+ I P+ + ++ ++ Y++ + LL E + L++KI L+L++ +
Sbjct: 94 QEASDKTLASIKIGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLNLEEIAI 153
Query: 230 RLKERLGS-------SLRISRP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 280
+ + G + + P + LM A+EK+V SN+RLV+SIA++Y N G
Sbjct: 154 QFESENGHYPSKKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGL 213
Query: 281 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 340
DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E
Sbjct: 214 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 273
Query: 341 LGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGL 398
+ I + K+ +E G PS + IAE + M+ +K+R F P SL
Sbjct: 274 ISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLR---------FIAKSAQLPISLETP 324
Query: 399 PGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL 456
G+ S + D NP V L++++ ++ TL RER+++RL YGLD +
Sbjct: 325 IGKEEDSRLGDFIESDSENPELDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRM 383
Query: 457 -TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 384 KTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 416
>gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa]
Length = 427
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/316 (34%), Positives = 175/316 (55%), Gaps = 27/316 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR--------- 243
++K V S ELL+ E + LS++I+ + L+ K RL R+G R
Sbjct: 105 FNSFIKEVGSFELLSAEEEIELSRQIRDLVQLETVKKRLAARIGREPREDEWAMAAGTQP 164
Query: 244 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA-DMADLVQGGLIGLLRGIEKFD 301
P QS +++ AR +LV SN+R V+SIA++Y N + DL+Q G IGL++ E+FD
Sbjct: 165 GPAFQSRILKGRRARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFD 224
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
KGFK TY WWIRQ + R+L + RT+RLP H+H+ L LI+ + +L + G P+
Sbjct: 225 LDKGFKFLTYATWWIRQAIFRSLQDQGRTIRLPVHVHDSLYLIKKTRQQLASRLGRIPTP 284
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN---RVEN--- 414
+ +A+ LN+ ++ T+A SL+ + + ET + +N +E+
Sbjct: 285 EELADELNIPVSRLAFITQAASLPISLE-------SPISSETSSTKARNNLGDFIESECL 337
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 473
P ++ L++++ ++ TL RER+IIR+ YGL D T ++I + +GL+RER+R
Sbjct: 338 QPDEQLERTMLREDLEN-VLATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIR 396
Query: 474 QVGLVALEKLKHAARK 489
Q+ A+ KLK RK
Sbjct: 397 QIEQSAMRKLKAPYRK 412
>gi|406993881|gb|EKE12962.1| hypothetical protein ACD_13C00110G0010 [uncultured bacterium]
Length = 359
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D KG+K STY WW
Sbjct: 122 AKDKLTESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRKGYKFSTYATWW 181
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + I R ++ ++E G P+ + I E L M ++
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKIYRTSRRLMQELGREPTPEEIGEELEMDGNRI 241
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++F + +E SL GE S++ D + VD + LKD + +
Sbjct: 242 R-------EIFKIAQET-TSLEAPVGEDQESFLGDFIPDETTLSPVDQASKQLLKDHLEE 293
Query: 432 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE ++++L +GL+ + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLGTLSEREAKVLKLRFGLEGSKAMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 491 KMEAML 496
K++ L
Sbjct: 353 KLQDYL 358
>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|419758826|ref|ZP_14285138.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB304]
gi|419857734|ref|ZP_14380437.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB202]
gi|419859523|ref|ZP_14382177.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni DSM 20252 = AWRIB129]
gi|421185425|ref|ZP_15642836.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB318]
gi|421188904|ref|ZP_15646236.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB419]
gi|421193631|ref|ZP_15650877.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB553]
gi|421195329|ref|ZP_15652537.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB568]
gi|421197442|ref|ZP_15654617.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB576]
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]
gi|399904281|gb|EJN91737.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB304]
gi|399964237|gb|EJN98891.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB419]
gi|399964606|gb|EJN99247.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB318]
gi|399971790|gb|EJO06029.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB553]
gi|399975051|gb|EJO09119.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB576]
gi|399975754|gb|EJO09789.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB568]
gi|410496540|gb|EKP88023.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni DSM 20252 = AWRIB129]
gi|410497205|gb|EKP88680.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB202]
Length = 458
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 339
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 493 EAML 496
+ +
Sbjct: 453 KDFM 456
>gi|220906009|ref|YP_002481320.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7425]
gi|219862620|gb|ACL42959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 372
Score = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 103/304 (33%), Positives = 174/304 (57%), Gaps = 16/304 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISRPE 245
++K + LL +E + L++++K + L + K +L +LG S + ++ +
Sbjct: 64 AFLKDMARYPLLQPSEEIELARRVKYLVELSELKDQLGRQLGRSATLPEVAAAMNLTEQQ 123
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
LQ + +A+ K++ SN+RLV+SIA+RY N G DLVQ G +GL R EKFD KG
Sbjct: 124 LQIRIYRGQVAKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRATEKFDPEKG 183
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 364
FK STY YWWIRQG++RA+ +SRT+RLP H+ E+L ++ + L +E P+ +A
Sbjct: 184 FKFSTYAYWWIRQGITRAIANDSRTIRLPIHIVEKLNKLKKLQRHLKKELQRNPTEQELA 243
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
+ L ++ ++++ A + SL+R G +T + + +P + +
Sbjct: 244 DALEITLEQLQMLQRARQQALSLNRRV-----GREEDTELLDLLEADSTQSPEKQMGEVM 298
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+++L+ + L ++ER++I L YGL E T E++S LSRERVRQ+ A+ KL
Sbjct: 299 MRQEISQLLDLVLTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQIQNKAIGKL 358
Query: 484 KHAA 487
+ +A
Sbjct: 359 RRSA 362
>gi|168491966|ref|ZP_02716109.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43)
[Streptococcus pneumoniae CDC0288-04]
gi|421231839|ref|ZP_15688483.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2080076]
gi|183573791|gb|EDT94319.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43)
[Streptococcus pneumoniae CDC0288-04]
gi|395595868|gb|EJG56094.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae 2080076]
Length = 369
Score = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|421189689|ref|ZP_15647003.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB422]
gi|421190853|ref|ZP_15648137.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB548]
gi|399972779|gb|EJO06978.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB422]
gi|399973549|gb|EJO07714.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB548]
Length = 458
Score = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMGLTADKV 339
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 493 EAML 496
+ +
Sbjct: 453 KDFM 456
>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 = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A+ L+MS+ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELADALDMSEDKV 264
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 491 KMEAML 496
++ L
Sbjct: 376 RIRDFL 381
>gi|352094758|ref|ZP_08955929.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351681098|gb|EHA64230.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 443
Score = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 201 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 260
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 261 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 320
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 321 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 370
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 371 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 429
Query: 484 KHAAR 488
+H R
Sbjct: 430 RHPNR 434
>gi|343524973|ref|ZP_08761929.1| RNA polymerase sigma factor RpoD [Streptococcus constellatus subsp.
pharyngis SK1060 = CCUG 46377]
gi|343396845|gb|EGV09381.1| RNA polymerase sigma factor RpoD [Streptococcus constellatus subsp.
pharyngis SK1060 = CCUG 46377]
Length = 283
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 45 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 104
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 105 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 164
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 165 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 216
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 217 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 275
Query: 491 KM 492
+
Sbjct: 276 PL 277
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 339
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 493 EAML 496
+ +
Sbjct: 453 KDFM 456
>gi|336424191|ref|ZP_08604234.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
3_1_57FAA_CT1]
gi|336007859|gb|EGN37879.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
3_1_57FAA_CT1]
Length = 397
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 155/246 (63%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 160 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 219
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++M ++V
Sbjct: 220 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMSMPVERV 279
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D ++N D A LK+++N+
Sbjct: 280 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFSLLKEQLNE 331
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 332 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 390
Query: 491 KMEAML 496
K++ L
Sbjct: 391 KLKDYL 396
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 122/382 (31%), Positives = 204/382 (53%), Gaps = 31/382 (8%)
Query: 140 THKKVPVT----CSGVSARQRRLNSKK--------KILSQNKSILQQNGSKQLRSMISPE 187
THK++ + G++ R RR +K K S S+ + SK+ R +
Sbjct: 194 THKELELLQKQLSEGIAVRSRRQTERKARRARAVEKAASSVVSVKPGSTSKKKRGSLQEV 253
Query: 188 LIQNRLKGYVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------S 237
+ L+ Y++G S LLT +E + LS I+ L L+ + L ER G +
Sbjct: 254 DYSDPLR-YLRGTTSTSRLLTASEELELSAAIQDLLKLERLQEELAERYGGQPTFAQWAA 312
Query: 238 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
+ + + L+ + ++ ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG
Sbjct: 313 AAGVDQRTLRKRINHGTICKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGA 372
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGV 356
EKFD+SKGFK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G
Sbjct: 373 EKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGR 432
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 416
P + +AE +S K++ SLD++ +++ P E IAD E
Sbjct: 433 HPDDEEVAEAAGLSMKRLSAVLLTPKAPRSLDQKIGMNMDLKPSEV----IADPEAETAE 488
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+ + +K ++ K ++ TL RE +++R +GL D T ++I + +G+SRER+RQ+
Sbjct: 489 ELLMKQF-MKQDLEK-VLNTLNPRETQVVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQI 546
Query: 476 GLVALEKLKHAARKKKMEAMLV 497
A KLK+ R K+++ L+
Sbjct: 547 ESSAFRKLKNKKRTKQLKQYLL 568
>gi|332707223|ref|ZP_08427276.1| RNA polymerase sigma factor RpoD-like protein [Moorea producens 3L]
gi|332353957|gb|EGJ33444.1| RNA polymerase sigma factor RpoD-like protein [Moorea producens 3L]
gi|332651116|gb|AEE81159.1| putative RNA polymerase sigma factor [Moorea producens 3L]
Length = 373
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL E+L + +
Sbjct: 62 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLEREPGDREWATEVD 121
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 122 MELPAFRYRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 181
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 182 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 241
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA+ + M+ +K+R F P SL G+ S + D +E +
Sbjct: 242 EEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 291
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 292 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 350
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 351 IEAKALRKLRHPNR 364
>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|417933777|ref|ZP_12577097.1| RNA polymerase sigma factor RpoD [Streptococcus mitis bv. 2 str.
F0392]
gi|419782714|ref|ZP_14308512.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK610]
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]
gi|340770347|gb|EGR92862.1| RNA polymerase sigma factor RpoD [Streptococcus mitis bv. 2 str.
F0392]
gi|383182927|gb|EIC75475.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK610]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|225436223|ref|XP_002273602.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 578
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 18/314 (5%)
Query: 196 YVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECS 254
Y++G S LLT E + LS+ I+ L L+ + L+ER G ++ + + + +
Sbjct: 270 YLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKT 329
Query: 255 LAR---------EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L R +K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 330 LRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKG 389
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 364
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P+ + +A
Sbjct: 390 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVA 449
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E +S K++ SLD++ + N P E IAD E + +
Sbjct: 450 EATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEV----IADPDAETAEELLIKQF- 504
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
+++++ K ++ +L RE+++IR YGL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 505 MREDLEK-VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKL 563
Query: 484 KHAARKKKMEAMLV 497
K+ R K ++ LV
Sbjct: 564 KNKRRTKHLQQYLV 577
>gi|385262076|ref|ZP_10040191.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK643]
gi|385191817|gb|EIF39229.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK643]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera]
Length = 575
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 18/314 (5%)
Query: 196 YVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECS 254
Y++G S LLT E + LS+ I+ L L+ + L+ER G ++ + + + +
Sbjct: 267 YLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKT 326
Query: 255 LAR---------EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L R +K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 327 LRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKG 386
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 364
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P+ + +A
Sbjct: 387 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVA 446
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E +S K++ SLD++ + N P E IAD E + +
Sbjct: 447 EATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEV----IADPDAETAEELLIKQF- 501
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
+++++ K ++ +L RE+++IR YGL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 502 MREDLEK-VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKL 560
Query: 484 KHAARKKKMEAMLV 497
K+ R K ++ LV
Sbjct: 561 KNKRRTKHLQQYLV 574
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 172/314 (54%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL---------DDHKLRLKERLGSSLR 240
++ ++ Y++ + LL E + L++KI L L D+ KL + + +
Sbjct: 136 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEWAALVE 195
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 196 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 255
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 256 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 315
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 415
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 316 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 365
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 366 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 424
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 425 IEAKALRKLRHPNR 438
>gi|418962651|ref|ZP_13514505.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus subsp.
whileyi CCUG 39159]
gi|383345186|gb|EID23319.1| RNA polymerase sigma factor RpoD [Streptococcus anginosus subsp.
whileyi CCUG 39159]
Length = 370
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPNRSK 362
Query: 491 KM 492
+
Sbjct: 363 PL 364
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 102/310 (32%), Positives = 170/310 (54%), Gaps = 13/310 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y++ + LLT E + L+++++ G ++ RL+ G + R +L
Sbjct: 106 VDDPVRVYLREIGRVNLLTAQEEIMLAQQVERGEQANE---RLQN--GDYTPVERLQLHR 160
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+ E ARE+L+ +N+RLV+SIA++Y G + DL+Q G IGL+R EKFD KG+K
Sbjct: 161 WVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKF 220
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYL 367
STY WWIRQ ++R + + SRT+RLP H+ E + + R+++ G P+ D IA L
Sbjct: 221 STYATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRTSNRIQQTTGRDPTPDEIALEL 280
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD 427
+ +KVR EA + SL+ P + + + +I D + P L++
Sbjct: 281 GIPVEKVRRVLEAARQTISLETPIGPEGDSVLAD----FIEDGK-GATPMESASSHILRE 335
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+++ + L ERER II+L YGL D T E++ + G++RER+RQ+ L KL+H
Sbjct: 336 QIDS-ALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHP 394
Query: 487 ARKKKMEAML 496
+ + L
Sbjct: 395 HYGRGLRGYL 404
>gi|309800318|ref|ZP_07694490.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302]
gi|385261367|ref|ZP_10039492.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK140]
gi|308116065|gb|EFO53569.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302]
gi|385188369|gb|EIF35855.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK140]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|417915154|ref|ZP_12558775.1| RNA polymerase sigma factor RpoD [Streptococcus mitis bv. 2 str.
SK95]
gi|342835268|gb|EGU69519.1| RNA polymerase sigma factor RpoD [Streptococcus mitis bv. 2 str.
SK95]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 [Streptococcus oralis Uo5]
gi|401683403|ref|ZP_10815289.1| RNA polymerase sigma factor RpoD [Streptococcus sp. BS35b]
gi|406576460|ref|ZP_11052089.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD6S]
gi|406586450|ref|ZP_11061381.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD1S]
gi|414158353|ref|ZP_11414647.1| RNA polymerase sigma factor rpoD [Streptococcus sp. F0441]
gi|417794250|ref|ZP_12441508.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK255]
gi|418974693|ref|ZP_13522602.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK1074]
gi|419778983|ref|ZP_14304864.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK10]
gi|419813671|ref|ZP_14338484.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD2S]
gi|419817680|ref|ZP_14341829.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD4S]
gi|421488962|ref|ZP_15936350.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK304]
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]
gi|334270094|gb|EGL88501.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK255]
gi|383186747|gb|EIC79212.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK10]
gi|383348064|gb|EID26023.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK1074]
gi|400187481|gb|EJO21675.1| RNA polymerase sigma factor RpoD [Streptococcus sp. BS35b]
gi|400368179|gb|EJP21194.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK304]
gi|404461467|gb|EKA07398.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD6S]
gi|404465611|gb|EKA11029.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD4S]
gi|404472782|gb|EKA17197.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD2S]
gi|404474130|gb|EKA18450.1| RNA polymerase sigma factor RpoD [Streptococcus sp. GMD1S]
gi|410870898|gb|EKS18855.1| RNA polymerase sigma factor rpoD [Streptococcus sp. F0441]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|342163695|ref|YP_004768334.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
IS7493]
gi|341933577|gb|AEL10474.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
IS7493]
Length = 369
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|417848248|ref|ZP_12494197.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK1073]
gi|419765984|ref|ZP_14292204.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK579]
gi|339454995|gb|EGP67608.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK1073]
gi|383354536|gb|EID32096.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK579]
Length = 369
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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|417924752|ref|ZP_12568183.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK569]
gi|418967633|ref|ZP_13519287.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK616]
gi|418976336|ref|ZP_13524215.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK575]
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]
gi|342835397|gb|EGU69640.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK569]
gi|383343293|gb|EID21482.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK616]
gi|383351610|gb|EID29391.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK575]
Length = 369
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|358464783|ref|ZP_09174741.1| RNA polymerase sigma factor RpoD [Streptococcus sp. oral taxon 058
str. F0407]
gi|419780173|ref|ZP_14306023.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK100]
gi|357066312|gb|EHI76462.1| RNA polymerase sigma factor RpoD [Streptococcus sp. oral taxon 058
str. F0407]
gi|383185332|gb|EIC77828.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK100]
Length = 369
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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|P26683.1|RPOD_NOSS1 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 = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|307709167|ref|ZP_07645626.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564]
gi|417850192|ref|ZP_12496106.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK1080]
gi|307620113|gb|EFN99230.1| RNA polymerase sigma factor rpoD [Streptococcus mitis SK564]
gi|339455035|gb|EGP67646.1| RNA polymerase sigma factor RpoD [Streptococcus mitis SK1080]
Length = 369
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|358458850|ref|ZP_09169055.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357077812|gb|EHI87266.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 422
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 175/303 (57%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LL A+ V LSK+++ GL +HKL E LG+ LR +L+ ++ +
Sbjct: 129 YLREIGRVPLLNAAQEVELSKRVEAGL-FAEHKLATAEELGTDLR---RDLKQLVRDGEA 184
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++LV +N+RLV+S+A++Y G + DLVQ G +GL+R +EKFD +KG+K STY WW
Sbjct: 185 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 244
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ + RAL + +RT+R+P H+ E++ I + +L G P+ + +A L+M ++V
Sbjct: 245 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPLEQV 304
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ ++ D + + G G++ ++ +P A++DE++ ++
Sbjct: 305 VEL-----RRYAQDTVSLETGVGDDGDSVLGDFIEDADATSPADAASYGAMQDEIDN-VL 358
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE++RL +GL D + T ++ R+GL+RER+RQ+ L +L+ A ++
Sbjct: 359 GNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLR 418
Query: 494 AML 496
L
Sbjct: 419 EFL 421
>gi|408677973|ref|YP_006877800.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae
ATCC 10712]
gi|328882302|emb|CCA55541.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae
ATCC 10712]
Length = 336
Score = 162 bits (409), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 107/312 (34%), Positives = 178/312 (57%), Gaps = 24/312 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDD---HKLRLKERLGSSLRISRPELQSI 249
+ Y++ + LLT E V L+++++ GL ++ + L RL S +L +
Sbjct: 40 FRQYLREIGRIPLLTAEEEVDLARRVEAGLFAEEKLANTPDLDSRLAS-------DLDRL 92
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
++ +A+ KL+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K S
Sbjct: 93 VVLGRIAKRKLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFS 152
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ +SRAL + +RT+R+P H+ E + +IR + L+E+G P+ + +A L+
Sbjct: 153 TYATWWIRQAMSRALADQARTIRVPVHVVELINRVIRVQRRMLQERGYEPTAEEVAAQLD 212
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---L 425
+ A E +G+V L +E SL+ GE + D + + V+ A L
Sbjct: 213 L-------APERVGEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLL 264
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+ + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L KL+
Sbjct: 265 RRHLED-VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLR 323
Query: 485 HAARKKKMEAML 496
A ++ L
Sbjct: 324 DHAYADQLRGYL 335
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 107/312 (34%), Positives = 175/312 (56%), Gaps = 18/312 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLRISRPEL 246
Y++ + LL E V L+++++ + L K L+ LGS + ++ EL
Sbjct: 54 YLQEIGRVPLLGRDEEVELAQQVQKLMKLTALKESLQTSLGSEYSDEQWAEAAKVGLFEL 113
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
+ ++ S A++K++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 114 KRQVLAGSRAKKKMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 173
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 365
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ + +L + G TP++ IAE
Sbjct: 174 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKTQRKLSQNLGRTPTISEIAE 233
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 425
L M VR + + SL+ G +T + E +P +L
Sbjct: 234 ELEMEPAHVRELMSRVPRSVSLETRV-----GKDKDTELGELL-EAEEVSPEESAVQESL 287
Query: 426 KDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+ +V +L+ L RER++I + YG LD + +I + + LSRERVRQ+ AL+KL+
Sbjct: 288 RRDVKELLD-DLTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQIESKALQKLR 346
Query: 485 HAARKKKMEAML 496
R+ K+ L
Sbjct: 347 QPRRRAKVRDYL 358
>gi|443320294|ref|ZP_21049405.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442790001|gb|ELR99623.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 376
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 172/317 (54%), Gaps = 32/317 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L + L +S+
Sbjct: 65 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELEQKREKLWQELKRIPNDREWAASVE 124
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 125 MELPAFRRRLYLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 184
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 185 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPT 244
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 412
+ IA ++ M+ +K+R ++ SL+ +E L GET ++ N +
Sbjct: 245 EEEIATHMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDDVSKNLL 304
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 471
+ H +D +L RER+++RL YGLD + T E+I + ++RER
Sbjct: 305 REDLEHVLD--------------SLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRER 350
Query: 472 VRQVGLVALEKLKHAAR 488
+RQ+ AL KL+H R
Sbjct: 351 IRQIEAKALRKLRHPNR 367
>gi|406911685|gb|EKD51428.1| hypothetical protein ACD_62C00257G0007 [uncultured bacterium]
Length = 694
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 456 AKGDLVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 515
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + ++E G PS + IA + M +KV
Sbjct: 516 IRQAITRAIADQARTIRIPVHMIETINRLVRTTRQLVQELGREPSPEEIAYKMEMPIEKV 575
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R KV + +E SL GE SY+ D +++ +P ++ L DE K
Sbjct: 576 R-------KVLKIAKEPI-SLETPIGEEEDSYLGDFIEDKIVMSPNDAAQNFNLSDET-K 626
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R K
Sbjct: 627 EVLETLTPREEKVLRMRFGIHEKSDHTLEEVGRDFSVTRERIRQIEAKALRKLRHPSRAK 686
Query: 491 KMEAML 496
K+ + +
Sbjct: 687 KLRSFV 692
>gi|383938188|ref|ZP_09991406.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
SK674]
gi|418969299|ref|ZP_13520430.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
ATCC BAA-960]
gi|383352240|gb|EID29963.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
ATCC BAA-960]
gi|383714906|gb|EID70894.1| RNA polymerase sigma factor RpoD [Streptococcus pseudopneumoniae
SK674]
Length = 369
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|322387734|ref|ZP_08061343.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
infantis ATCC 700779]
gi|419843975|ref|ZP_14367280.1| RNA polymerase sigma factor RpoD [Streptococcus infantis ATCC
700779]
gi|321141601|gb|EFX37097.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
infantis ATCC 700779]
gi|385702399|gb|EIG39544.1| RNA polymerase sigma factor RpoD [Streptococcus infantis ATCC
700779]
Length = 369
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|407983270|ref|ZP_11163927.1| RNA polymerase sigma factor, sigma-70 family protein [Mycobacterium
hassiacum DSM 44199]
gi|407375163|gb|EKF24122.1| RNA polymerase sigma factor, sigma-70 family protein [Mycobacterium
hassiacum DSM 44199]
Length = 319
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 112/320 (35%), Positives = 167/320 (52%), Gaps = 54/320 (16%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG R EL+ ++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLETRKRLGEK---RRRELEEVVRDGEE 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE----------------EKGVTPS 359
IRQ ++R + + SRT+RLP HL E++ + A++R E E G+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKL--ARIRRELHQTLGREATDEELAAESGI--P 197
Query: 360 VDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 413
VD+I + L S+ V EA F D EA + N + E H+ I
Sbjct: 198 VDKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDAEAMSAENAVIAELLHTDI------ 251
Query: 414 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERV 472
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERV
Sbjct: 252 -----------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERV 294
Query: 473 RQVGLVALEKLKHAARKKKM 492
RQ+ + KL+H R ++
Sbjct: 295 RQIEREVMAKLRHGERADRL 314
>gi|428778228|ref|YP_007170015.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothece sp. PCC
7418]
gi|428692507|gb|AFZ45801.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothece sp. PCC
7418]
Length = 394
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 112/315 (35%), Positives = 173/315 (54%), Gaps = 28/315 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-------SLRIS 242
++ ++ Y++ + LL E + L++KI L L+ + L+ +G + +
Sbjct: 82 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERKRTELEATIGCEPTDEEWAEEVD 141
Query: 243 RPELQSI---LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
P LQ LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EK
Sbjct: 142 MP-LQKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEK 200
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTP 358
FD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P
Sbjct: 201 FDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKP 260
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN-- 415
+ + IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 261 TEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGE 310
Query: 416 -PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 473
P V L++++ ++ TL RER+++RL YGL D T E+I + ++RER+R
Sbjct: 311 TPEDEVSKSLLREDLED-VLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNVTRERIR 369
Query: 474 QVGLVALEKLKHAAR 488
Q+ AL KL+H R
Sbjct: 370 QIEAKALRKLRHPNR 384
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 93/275 (33%), Positives = 165/275 (60%), Gaps = 17/275 (6%)
Query: 230 RLKERLGSSLRISRPELQSI---LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
++KER + R + EL+ + L + S A+ +L+ +N+RLV+SIA++Y N G DL+
Sbjct: 322 QVKERTNMTPRELKSELERVERSLEKASRAKSELIQANLRLVVSIAKKYTNRGLMFLDLI 381
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R
Sbjct: 382 QEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLMR 441
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
++ ++E G P+ + IAE + KVR KV + +E SL GE S
Sbjct: 442 TSRYLVQEHGREPTSEEIAEKMEFPLDKVR-------KVLKIAKEPI-SLETPIGEEEDS 493
Query: 406 YIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDI 461
++ D + N P V ++ L ++ K ++ TL RE +++R+ +G+ +K T E++
Sbjct: 494 HLGDFIEDKNILSPGDAVVNFGLAEQTRK-VLTTLTPREEKVLRMRFGIGEKADHTLEEV 552
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ ++RER+RQ+ AL KL+H +R +K+++ +
Sbjct: 553 GRDFSVTRERIRQIEAKALRKLRHPSRSRKLKSFM 587
>gi|440682243|ref|YP_007157038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428679362|gb|AFZ58128.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 318
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 101/305 (33%), Positives = 173/305 (56%), Gaps = 18/305 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH E +R K+++ +L + + L +L ++ +I
Sbjct: 11 VRTYLREIGRVPLLTHEEEIRYGKQVQRCTALYEVRENLATQLDRQPNLEEWAAAAQIEL 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 VELNEAIAEGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G P+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTATE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ K+V+ E SLD + + GE A +P V
Sbjct: 191 LAQELELTPKQVQECLEKARLPLSLDLRLGDNYDTELGELLEDTGA------SPEDFVMQ 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L ++ ++ + L +++E+I+L +G LD + LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSYDLERM-MAELTPQQKEVIKLRFGLLDGQSLTLAKIGEILNISRERVRQIEREALT 303
Query: 482 KLKHA 486
KL+ +
Sbjct: 304 KLRKS 308
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 104/320 (32%), Positives = 178/320 (55%), Gaps = 28/320 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ +L + K L LG + +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRTTALHEAKNALALELGRDPTRTEWAEAAGLSE 71
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
ELQ + A+ +V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 TELQRTIHAGERAKRMMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L +K G + +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQKLGRAATANE 191
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 421
+A L ++ K++R L+R P SL+ G+ + + D + + +
Sbjct: 192 LAAELELTPKQIRE---------YLERARLPLSLDLRVGDNQDTELGD--LLEDTGASPE 240
Query: 422 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D+AL+ + ++++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQASLRADLEMLMADLTQQQREVLALRFGLEDGQTLTLSKIGDRLNISRERVRQIER 300
Query: 478 VALEKLKHAARKKKMEAMLV 497
AL KL+ RK+ M+ L
Sbjct: 301 EALTKLRK--RKQDMDDYLA 318
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLYEQLEREPQFKEWAEAVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>gi|427729924|ref|YP_007076161.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427365843|gb|AFY48564.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 390
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRERLSEQLERDPHDSEWAEAVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155]
Length = 319
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 102/298 (34%), Positives = 169/298 (56%), Gaps = 18/298 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG + + +LQ+++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTKKRLGEA---RKRDLQAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K + + G + + +AE + +K+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGIPVEKI 201
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN---K 431
+ E SLD +P T + +E++ ++ + + ++ +
Sbjct: 202 NDLLEHSRDPVSLD---------MPVGTDEEAPLGDFIEDSEAMSAENAVISELLHTDIR 252
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ+ + KL++ R
Sbjct: 253 YVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLRNGER 310
>gi|335029861|ref|ZP_08523363.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1076]
gi|417936201|ref|ZP_12579518.1| RNA polymerase sigma factor RpoD [Streptococcus infantis X]
gi|417937775|ref|ZP_12581075.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK970]
gi|421277260|ref|ZP_15728080.1| RNA polymerase sigma factor [Streptococcus mitis SPAR10]
gi|334268003|gb|EGL86453.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1076]
gi|343392039|gb|EGV04612.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK970]
gi|343403110|gb|EGV15615.1| RNA polymerase sigma factor RpoD [Streptococcus infantis X]
gi|395876541|gb|EJG87617.1| RNA polymerase sigma factor [Streptococcus mitis SPAR10]
Length = 369
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 104/309 (33%), Positives = 180/309 (58%), Gaps = 18/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + KL S L + +L +++
Sbjct: 70 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLANTPDPDSQLAV---DLDRLVVM 125
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 126 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 185
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L ++
Sbjct: 186 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVATHLELT- 244
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDE 428
+E + +V L +E SL+ GE + D + + V+ A L++
Sbjct: 245 ------SERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 297
Query: 429 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
++ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L KL+ A
Sbjct: 298 LDA-VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHA 356
Query: 488 RKKKMEAML 496
++ L
Sbjct: 357 FADQLRGYL 365
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 99/274 (36%), Positives = 163/274 (59%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRLKE---RLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+ L D K L E R G +++ EL I + A+E ++ +N+RLV+S+A++Y N
Sbjct: 152 GIKLMDLKPTLSEGKRRWGEIAQLTVEELDEIQSQGIQAKEHMIKANLRLVVSVAKKYQN 211
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 212 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 271
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR + + SL+ + +
Sbjct: 272 TEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVREVLLRVPRSVSLETKVGKDKD 331
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L+ +++ L + L RERE+I + +GL D
Sbjct: 332 TELGELLETDTI------TPEETLMRESLQKDIHHL-LSDLTTREREVILMRFGLADGHS 384
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 385 YSLAEIGRALELSRERVRQIESKALQKLRQPKRR 418
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 108/304 (35%), Positives = 169/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ +H L +L R +L++++ + L
Sbjct: 31 YLNGIGRTALLTAQEEVDLAKRIEAGV-FANHVLETSGKLSPE---RRSDLKAVVRDGVL 86
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 87 AKNHLMEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 146
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ I K L +K G + + +A ++ +KV
Sbjct: 147 IRQAITRGMADQSRTIRLPVHLVEQVNKIARIKRDLHQKLGREATDEELANEAGLTVEKV 206
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDDWALKDEVNK 431
+ + SLD + G+ +I D EN G L+D++ +
Sbjct: 207 ADLLDHSRDPVSLDMPVGAEEDAPLGD----FIEDAESADAENAVISGF----LQDDLRR 258
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+ +IR+ YGLD + T + I K GLSRERVRQ+ + KL+ R
Sbjct: 259 -VLSTLEEREQAVIRMRYGLDDGQPRTLDQIGKAFGLSRERVRQIEREVMSKLRQGDRAD 317
Query: 491 KMEA 494
K+ A
Sbjct: 318 KLRA 321
>gi|344999511|ref|YP_004802365.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces sp.
SirexAA-E]
gi|344315137|gb|AEN09825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp.
SirexAA-E]
Length = 355
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL A+ V L+++++ GL ++ RL G R+++ +L ++++
Sbjct: 59 FRQYLREIGRIPLLGAADEVELARRVEAGLFAEE---RLAATPGPDTRLAQ-DLGRLVVQ 114
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 115 GRMAERRLIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTRGYKFSTYA 174
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS + +A L+++
Sbjct: 175 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAEEVAAQLDLTP 234
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V + L +E SL+ GE D + + V+ A L E
Sbjct: 235 ERVET-------ILRLAQEPV-SLHAPVGEEDDVAFGDLIEDGDAPSPVESAAFLLLREH 286
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L +L+ A
Sbjct: 287 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLARLRDHAF 346
Query: 489 KKKMEAML 496
++ L
Sbjct: 347 ADQLRGYL 354
>gi|307703796|ref|ZP_07640737.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037]
gi|417939941|ref|ZP_12583229.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK313]
gi|307622631|gb|EFO01627.1| RNA polymerase sigma factor RpoD [Streptococcus oralis ATCC 35037]
gi|343388822|gb|EGV01407.1| RNA polymerase sigma factor RpoD [Streptococcus oralis SK313]
Length = 318
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 80 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 139
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 140 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 199
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 200 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 251
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 252 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 310
Query: 491 KM 492
+
Sbjct: 311 PL 312
>gi|357399134|ref|YP_004911059.1| RNA polymerase principal sigma factor hrdA [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|386355181|ref|YP_006053427.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
gi|337765543|emb|CCB74252.1| RNA polymerase principal sigma factor hrdA [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|365805689|gb|AEW93905.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
Length = 393
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 104/311 (33%), Positives = 178/311 (57%), Gaps = 22/311 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDD---HKLRLKERLGSSLRISRPELQSI 249
+ Y++ + LLT E V L+++++ GL ++ H L RL +L +
Sbjct: 97 FRQYLREIGRIPLLTAEEEVELARRVEAGLFAEEKLEHTPDLDTRLAG-------DLDRL 149
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K S
Sbjct: 150 VVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFS 209
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P +A+ L+
Sbjct: 210 TYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGYEPCAADVADQLD 269
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LK 426
+++++V G+V L +E SL+ G+ + D + + V+ A L
Sbjct: 270 LTEERV-------GEVLRLAQEPV-SLHAPVGDEDDVALGDLIEDGDAASPVESAAFLLL 321
Query: 427 DEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
E + ++ TLGERER +++L YG LD T E+I + G++RER+RQ+ L KL+
Sbjct: 322 REHLEAVLSTLGERERRVVQLRYGLLDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRD 381
Query: 486 AARKKKMEAML 496
A +++ L
Sbjct: 382 HAFAEQLRGYL 392
>gi|421186327|ref|ZP_15643720.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB418]
gi|399967280|gb|EJO01762.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB418]
Length = 458
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + + + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEVGAEMELTADKV 339
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 434 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 493 EAML 496
+ +
Sbjct: 453 KDFM 456
>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 = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 108/316 (34%), Positives = 176/316 (55%), Gaps = 26/316 (8%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSS 238
++ ++ Y++ + LL E + L++KI L L+ + L E+L +
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 196
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 357
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 197 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 256
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN- 415
P+ + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 257 PTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDG 306
Query: 416 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 472
P V L++++ + ++ +LG RER+++RL YGLD + T E+I + ++RER+
Sbjct: 307 ETPEDQVSKSLLREDLER-VLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERI 365
Query: 473 RQVGLVALEKLKHAAR 488
RQ+ AL KL+H R
Sbjct: 366 RQIEAKALRKLRHPNR 381
>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 = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 97/244 (39%), Positives = 142/244 (58%), Gaps = 15/244 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 202 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 261
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 262 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 321
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNPWHGVDDWAL 425
M+ +K+R F P SL G+ S + D NP V L
Sbjct: 322 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDTENPEQDVAKNLL 372
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 484
++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+
Sbjct: 373 REDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAKALRKLR 431
Query: 485 HAAR 488
H R
Sbjct: 432 HPNR 435
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 143 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 202
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 262
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 263 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 314
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 315 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 373
Query: 491 KM 492
+
Sbjct: 374 PL 375
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 108/316 (34%), Positives = 176/316 (55%), Gaps = 26/316 (8%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSS 238
++ ++ Y++ + LL E + L++KI L L+ + L E+L +
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
+++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 196
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 357
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 197 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 256
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN- 415
P+ + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 257 PTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDG 306
Query: 416 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 472
P V L++++ + ++ +LG RER+++RL YGLD + T E+I + ++RER+
Sbjct: 307 ETPEDQVSKSLLREDLER-VLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERI 365
Query: 473 RQVGLVALEKLKHAAR 488
RQ+ AL KL+H R
Sbjct: 366 RQIEAKALRKLRHPNR 381
>gi|428314272|ref|YP_007125249.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
gi|428255884|gb|AFZ21843.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
Length = 319
Score = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 102/305 (33%), Positives = 172/305 (56%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + K+++ +L D K L + LG ++ +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEILYGKQVQRLTALQDMKESLWQELGHEPTLEEWATAAELSP 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL S + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 SELNSHINAGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L + G +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQNLGRAATVGE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 420
+A+ L+++ K+VR E + SLD G+ + + + +P V
Sbjct: 191 LAQELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELVELLEDTGPSPEDFV 242
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
A++ ++ KL + L ++RE++ L +GL D + +T I R+ +SRERVRQ+ A
Sbjct: 243 THSAMQVDLEKL-MADLTAQQREVLALRFGLEDGQPMTLAKIGDRLNISRERVRQIEREA 301
Query: 480 LEKLK 484
L KL+
Sbjct: 302 LSKLR 306
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 227 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 286
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 287 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 346
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 347 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 396
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 397 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 455
Query: 484 KHAAR 488
+H R
Sbjct: 456 RHPNR 460
>gi|428772058|ref|YP_007163846.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
stanieri PCC 7202]
gi|428686337|gb|AFZ46197.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
stanieri PCC 7202]
Length = 318
Score = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 105/305 (34%), Positives = 176/305 (57%), Gaps = 18/305 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRI 241
+ ++ Y+K + LLT E + +K I+ ++L+ K L ++L + +I
Sbjct: 9 DTIRVYLKEIGRIPLLTQEEEIIYAKHIQELVALEKKKETLAKKLEHEPTLGEWAKAAKI 68
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
S LQ + + A+ ++V +N+RLV+SIA++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 69 SEKNLQIKITQGEKAKRRMVEANLRLVVSIAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 360
+KG++ STY YWWIRQ ++RA+ E SR +RLP H+ E+L IR + +L EEKG ++
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATI 188
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
+AE L +S ++VR + SLD + G +T + +++ + +P
Sbjct: 189 AELAEALELSTEQVREYLGKARQPLSLDLKV-----GDNNDTELGELLEDKGQ-SPEDFT 242
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
D L+ ++ K+ + L ++++++IRL YGL D + LT I + +SRERVRQ+ A
Sbjct: 243 DYSCLQFDLKKM-MSELTQQQQDVIRLRYGLEDGKPLTLSKIGDILSISRERVRQIEREA 301
Query: 480 LEKLK 484
L KL+
Sbjct: 302 LTKLR 306
>gi|428223283|ref|YP_007107453.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7502]
gi|427996623|gb|AFY75318.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7502]
Length = 393
Score = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 174/317 (54%), Gaps = 29/317 (9%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSI 249
++ ++ Y++ + LL E + L++KI L L+D + L E+ L E ++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLQLEDKQRELAEQHDCDLEDVNLEDWAV 138
Query: 250 LMECSL------------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
M+ L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 139 EMDMPLDKFKNRLHSGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA 198
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGV 356
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 199 EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGR 258
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN 415
PS + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 KPSEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESD 308
Query: 416 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 471
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 309 GETPDDQVAKNLLREDLES-VLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 367
Query: 472 VRQVGLVALEKLKHAAR 488
+RQ+ AL KL+H R
Sbjct: 368 IRQIEAKALRKLRHPNR 384
>gi|226366207|ref|YP_002783990.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4]
gi|424852224|ref|ZP_18276621.1| RNA polymerase sigma factor RpoS [Rhodococcus opacus PD630]
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]
gi|356666889|gb|EHI46960.1| RNA polymerase sigma factor RpoS [Rhodococcus opacus PD630]
Length = 323
Score = 161 bits (407), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 168/302 (55%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V LSK+I+ GL H L +RL + + +L +++ E
Sbjct: 30 YLNGIGRTALLTAADEVELSKRIEAGLYAA-HILETGKRLSPA---KKRDLATVVREGQS 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +AE + K+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAEESGIPAHKI 205
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D+ EN G+ L +V +
Sbjct: 206 ADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDSEATSAENAVIAGL----LHSDV-R 256
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ + KL+ R +
Sbjct: 257 TVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKLRQGDRAE 316
Query: 491 KM 492
++
Sbjct: 317 RL 318
>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 = 161 bits (407), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 214 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 273
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 274 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 333
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 334 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 383
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 384 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 442
Query: 484 KHAAR 488
+H R
Sbjct: 443 RHPNR 447
>gi|427418816|ref|ZP_18908999.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7375]
gi|425761529|gb|EKV02382.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7375]
Length = 434
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 94/254 (37%), Positives = 155/254 (61%), Gaps = 9/254 (3%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL E + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 180 MSVQELDEACSEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 239
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +
Sbjct: 240 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQTKGRTAT 299
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
V+ IA L M+ +VR + + SL+ + G +T + + +
Sbjct: 300 VEDIARELKMTAPQVREVLLKVPRSISLETKV-----GKERDTELGDLLETDALSPEELA 354
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
V D AL+ ++++L + L RE+E+IRL +GL D + +I + + LSRERVRQ+
Sbjct: 355 VRD-ALRRDLHQL-LADLTTREQEVIRLRFGLGDGVPYSLAEIGRTLELSRERVRQIESK 412
Query: 479 ALEKLKHAARKKKM 492
AL+KL+ R+ ++
Sbjct: 413 ALQKLRQPKRRNRI 426
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 107/307 (34%), Positives = 184/307 (59%), Gaps = 21/307 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK-ERLGSSLRISRPELQSI 249
+ +K Y+K + LLT A+ V L+++I+ GL + HK++ + + L S LR ELQ +
Sbjct: 206 DPVKDYLKQIGKVSLLTAADEVDLARRIEAGLYAE-HKIKTEGDELPSKLR---RELQIL 261
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + L++ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 262 VHDGQLSKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 321
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ + +A+ L+
Sbjct: 322 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELD 381
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWA 424
M+ +KV +V RE SL+ GE S D +E++ P V
Sbjct: 382 MTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAIVPTDAVSFTL 432
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
L+++++K ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL
Sbjct: 433 LQEQLHK-VLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKL 491
Query: 484 KHAARKK 490
+H +R +
Sbjct: 492 RHPSRSQ 498
>gi|334119649|ref|ZP_08493734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
gi|333457811|gb|EGK86432.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
Length = 357
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 170/309 (55%), Gaps = 28/309 (9%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRL---------KERLGSSLRISRPELQSILMECSL 255
LLT E V L+++++ ++LD+ + RL K L ++L IS +LQ + +C
Sbjct: 59 LLTATEEVELARRVQELVALDEVEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQS 118
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWW
Sbjct: 119 AKRKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWW 178
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG----LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
IRQG++R + RT+RLP H+ E+L + R+ + L+ P+ +A + ++
Sbjct: 179 IRQGITRTIANQGRTIRLPVHIVEQLNKLKKVYRDLRRSLQR---NPTETELAREMQVTC 235
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
+++R + R SLN G S + D + +P +++ ++ +
Sbjct: 236 EQLRYLQQV--------RRQSLSLNHRIGSEESSELLDVLEDNATQSPEAQMNEMMMRQD 287
Query: 429 VNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+ +++ L ERE+EI+ + YG L E T E++S LSRERVRQ+ A+ KL+
Sbjct: 288 ILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRRPQ 347
Query: 488 RKKKMEAML 496
++++ L
Sbjct: 348 VTERLKGWL 356
>gi|257784627|ref|YP_003179844.1| RpoD subfamily RNA polymerase sigma-70 subunit [Atopobium parvulum
DSM 20469]
gi|257473134|gb|ACV51253.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Atopobium
parvulum DSM 20469]
Length = 455
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 183/314 (58%), Gaps = 22/314 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT +E V L+ KI+ G + +L++ + ++R E +
Sbjct: 149 LTGDPVRMYLKEIGKVDLLTASEEVHLAMKIEAGTA---ASQKLEDFEDGLIELNRAEQR 205
Query: 248 SILMECSL---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
++ S+ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +K
Sbjct: 206 RLMRIESVGLDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTK 265
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I
Sbjct: 266 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFGRDPTPEEI 325
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
+ MS +VR ++ + +E SL GE S + D +E++ P
Sbjct: 326 GSEMGMSPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSTAVAPPDA 376
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
D L++++ + ++ +L +RER++I+ +GL D T E++ K G++RER+RQ+
Sbjct: 377 ASDSMLREQLEQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTRERIRQIESK 435
Query: 479 ALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 436 TLAKLRHPSRSGRL 449
>gi|440682269|ref|YP_007157064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428679388|gb|AFZ58154.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 392
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL+++L ++
Sbjct: 81 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQDQLEREPQFKEWAEAVE 140
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 141 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 200
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 201 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 260
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 261 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 310
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 311 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 369
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 370 IEAKALRKLRHPNR 383
>gi|358064323|ref|ZP_09150899.1| hypothetical protein HMPREF9473_02962 [Clostridium hathewayi
WAL-18680]
gi|356697448|gb|EHI59031.1| hypothetical protein HMPREF9473_02962 [Clostridium hathewayi
WAL-18680]
Length = 376
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 140 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 199
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L MS+ KV
Sbjct: 200 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALEMSEDKV 259
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 260 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVTPEGNVESVMLREHIDA 311
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 312 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 370
Query: 491 KMEAML 496
++ L
Sbjct: 371 RIRDFL 376
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 143/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 261 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 320
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+ + IAE +
Sbjct: 321 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESME 380
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 381 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 430
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 431 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 489
Query: 484 KHAAR 488
+H R
Sbjct: 490 RHPNR 494
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 209 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 268
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 269 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 328
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 329 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 378
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 379 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 437
Query: 484 KHAAR 488
+H R
Sbjct: 438 RHPNR 442
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 118/351 (33%), Positives = 191/351 (54%), Gaps = 28/351 (7%)
Query: 159 NSKKKILSQNKSILQQ---NGSKQLRSMIS-----PELI--QNRLKGYVKGVVSEELLTH 208
NSK+K L+ SI + NGS + I P+ I ++ ++ Y++ + LL
Sbjct: 44 NSKQKPLNDEGSIENKDEFNGSDEEAKAIGNVKLGPKGIYTEDSIRVYLQEIGRIRLLRP 103
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLG--SSLR-------ISRPELQSILMECSLAREK 259
E + L++KI L L++ + + G S+R + + + L+ A+EK
Sbjct: 104 DEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELTDMPLSKFRRRLLLGRRAKEK 163
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWIRQ
Sbjct: 164 MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQA 223
Query: 320 VSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 378
++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+R
Sbjct: 224 ITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIA 283
Query: 379 EAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLG 438
++ SL+ + G+ + I NP V L++++ ++ TL
Sbjct: 284 KSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VLATLS 336
Query: 439 EREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 337 PRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 387
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 209 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 268
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 269 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 328
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 329 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 378
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 379 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 437
Query: 484 KHAAR 488
+H R
Sbjct: 438 RHPNR 442
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 176/302 (58%), Gaps = 18/302 (5%)
Query: 204 ELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMECS--LAREK 259
E+ E V + I G+S+DD ++ LKE L + E+Q + ME A+ +
Sbjct: 75 EIEAAPEEVDIDLSIPEGISIDDPVRMYLKEIGRVPLLTAEEEIQLAKRMEQGDEEAKRR 134
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 135 LAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQA 194
Query: 320 VSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 378
++RA+ + +RT+R+P H+ E + LIR ++ L+EKG P+ + IA +++S ++VR
Sbjct: 195 ITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIAREMDISVERVR--- 251
Query: 379 EAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIV 435
++ + +E SL GE S++ D ++ P LK+++ + ++
Sbjct: 252 ----EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VLE 305
Query: 436 TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
TL RE +++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++
Sbjct: 306 TLTPREEKVLRLRFGLDDGRARTLEEVGQYFGVTRERIRQIEAKALRKLRHPSRSKKLKD 365
Query: 495 ML 496
L
Sbjct: 366 FL 367
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 103/310 (33%), Positives = 171/310 (55%), Gaps = 19/310 (6%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR----LKER-----LGSSLRISRPE 245
+ K + LL E + L+++++ + ++D+ + LK R L ++ + +
Sbjct: 159 AFFKEMARYPLLQPTEEIELARQVRIIVEIEDYSEKASETLKRRPTHAELATAFGYTEGQ 218
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+ L + A+ +++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 219 LRQKLRQARAAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKG 278
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 364
+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ A+ L +E TP+ +A
Sbjct: 279 YKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRKELQRTPTEVEVA 338
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
L M+ +++R + K SL+ G +T + ++ +P + +
Sbjct: 339 AALEMTPEQLRTLQQVQRKSLSLNHRV-----GKGEDTELMELLEDGNSLSPESQISESM 393
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E++ ++ L ERE+EII L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 394 MRQEISDVLTEVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKAMRKL 453
Query: 484 KH---AARKK 490
+ AAR K
Sbjct: 454 RRPQVAARLK 463
>gi|434406935|ref|YP_007149820.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428261190|gb|AFZ27140.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 349
Score = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 177/316 (56%), Gaps = 18/316 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----- 236
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG
Sbjct: 31 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVREFLATQLGRQPNL 90
Query: 237 ----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
++ ++ L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 91 EEWAAATKLETTALNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 150
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 352
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 151 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 210
Query: 353 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
++ G P+ +A+ L ++ K+VR E SLD + + GE A
Sbjct: 211 QQLGRAPTAAELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA--- 267
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 470
+P V +L ++ +L I L +++E+I L +GL D + LT I + + +SRE
Sbjct: 268 ---SPEEFVMQSSLSYDLERL-IAELTPQQKEVITLRFGLIDGQALTLAKIGEILNISRE 323
Query: 471 RVRQVGLVALEKLKHA 486
RVRQ+ AL KL+ +
Sbjct: 324 RVRQIEREALTKLRKS 339
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 175/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG--SSLR-----IS 242
++ ++ Y++ + LL E + L++KI L L++ + + G S+R I
Sbjct: 86 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQFESEKGHFPSVREWAELID 145
Query: 243 RP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 146 MPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 205
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 206 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 265
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 415
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 266 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 315
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ
Sbjct: 316 PEQDVSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQ 374
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 375 IEAKALRKLRHPNR 388
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 93/265 (35%), Positives = 160/265 (60%), Gaps = 16/265 (6%)
Query: 238 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
SLR+ ++ L+ LA+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ +
Sbjct: 343 SLRLILRRVEDGLIRAKLAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAV 402
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGV 356
+KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G
Sbjct: 403 DKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGR 462
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRV 412
P+ + IAE + +KVR KV + +E SL GE S +I D RV
Sbjct: 463 EPTPEEIAEKMEFPVEKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKRV 514
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 471
+P V + L ++ K + TL RE +++R+ +G+ +K T E++ + ++RER
Sbjct: 515 -ASPVDAVINLNLSEQTRK-ALATLTPREEKVLRMRFGIGEKADHTLEEVGQDFAVTRER 572
Query: 472 VRQVGLVALEKLKHAARKKKMEAML 496
+RQ+ AL KL+H +R+K++++ +
Sbjct: 573 IRQIEAKALRKLRHPSRRKELKSFI 597
>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 = 160 bits (406), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 184/321 (57%), Gaps = 27/321 (8%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL------RI 241
L + ++ Y+K + LLT AE + L+ KI+ G+ + + L R+
Sbjct: 115 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVEAGEQLEAAEADNAEELSRREHRRL 174
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
+R ++++ ++ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD
Sbjct: 175 TR--IEAVGLD---AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFD 229
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 360
+KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+
Sbjct: 230 YTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTP 289
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----P 416
+ IAE ++++ +VR ++ + +E SL GE S + D +E++ P
Sbjct: 290 EEIAEEMDLTPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAAVVP 340
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
L++++ K ++ L ERER++I L +GL D T E++ + G++RER+RQ+
Sbjct: 341 PDAASFSMLQEQLTK-VLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQI 399
Query: 476 GLVALEKLKHAARKKKMEAML 496
L KL+H +R K++ L
Sbjct: 400 ESKTLAKLRHPSRSSKLKDYL 420
>gi|443316918|ref|ZP_21046344.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783448|gb|ELR93362.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 317
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/309 (33%), Positives = 180/309 (58%), Gaps = 20/309 (6%)
Query: 189 IQNR--LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GS 237
IQN ++ Y+K + LLTH E + L K+++ L+ + L E L +
Sbjct: 4 IQNTDLVRTYLKEIGRVPLLTHEEEIVLGKQVQHLSLLEKRREALTEELDRTPTQAEWAA 63
Query: 238 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
++ +S +L +I+ A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+
Sbjct: 64 AVNLSEGQLLTIVRAGDTAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGV 123
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GV 356
EKFD +KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++ G
Sbjct: 124 EKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQYGR 183
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 416
+V +A L ++ K+VR+ E + SLD G +T S + ++ +P
Sbjct: 184 AATVMELAAELELTPKQVRDYLEKARQPLSLDLRV-----GDNQDTELSELLEDE-GPSP 237
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
AL+ ++++L + L ++++++RL +GL D + LT I + + +SRERVRQ+
Sbjct: 238 EEFATQAALRRDLDRL-MGDLTPQQQQVLRLRFGLTDGQTLTLAKIGEMLSISRERVRQI 296
Query: 476 GLVALEKLK 484
AL KL+
Sbjct: 297 EREALTKLR 305
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 180/315 (57%), Gaps = 24/315 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT +E V L+ KI+ G + +L++ + +SR E Q
Sbjct: 149 LTGDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGT---EATQKLEDFEDEKIELSRAE-Q 204
Query: 248 SILMECSL----AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
LM A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 205 RRLMRIEQVGLDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYT 264
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ +
Sbjct: 265 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPTPEE 324
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 418
I + MS +VR ++ + +E SL GE S + D +E++ P
Sbjct: 325 IGAEMGMSPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSTAIAPPD 375
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D L++++ + ++ L +RER++I+ +GL D T E++ + G++RER+RQ+
Sbjct: 376 AASDSMLREQLEQ-VLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTRERIRQIES 434
Query: 478 VALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 435 KTLAKLRHPSRSSRL 449
>gi|428299682|ref|YP_007137988.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428236226|gb|AFZ02016.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 389
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 177/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L ++L +++
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSQQLDRDPKDSEWAEAVQ 137
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 VPLPQFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 88/241 (36%), Positives = 147/241 (60%), Gaps = 8/241 (3%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E + ++K+V SN+RLV+SIA++Y N G DL+Q G IGL++ ++KFD KG+K STY
Sbjct: 335 EVNETKQKIVQSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFDYKKGYKFSTY 394
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + L+R A+ ++E G P+ + IA+ + M
Sbjct: 395 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRVARSMVQELGREPTPEEIAKKVGMP 454
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN 430
+KVR + SL+ + G E+H +++ +P V AL+ ++
Sbjct: 455 PEKVRKILRTSQEPISLE-----TPIGDDDESHLGDFIEDKTVMSPEQHVLRQALRQQLE 509
Query: 431 KLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL ERE +++R +GL+ + T E + K+ G++RER+RQ+ AL KL+H R
Sbjct: 510 E-VLSTLSEREEQVLRYRFGLEDDTEYTLEQVGKKFGVTRERIRQIEAKALRKLRHPHRA 568
Query: 490 K 490
K
Sbjct: 569 K 569
>gi|402832995|ref|ZP_10881618.1| RNA polymerase sigma factor RpoD [Selenomonas sp. CM52]
gi|402281738|gb|EJU30364.1| RNA polymerase sigma factor RpoD [Selenomonas sp. CM52]
Length = 375
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 173/303 (57%), Gaps = 32/303 (10%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLAR----------E 258
E V + I G+S+DD ++ LKE I R L S E +LA+ +
Sbjct: 88 EEVDIDLSIPEGISIDDPVRMYLKE-------IGRVPLLSADEEIALAKRMEAGDEEAQK 140
Query: 259 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 318
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 141 ELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQ 200
Query: 319 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 377
++RA+ + +RT+R+P H+ E + LIR ++ L++ G PS + IAE + +S ++VR
Sbjct: 201 AITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVR-- 258
Query: 378 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLII 434
++ + +E SL GE S++ D ++ P LK+++ + ++
Sbjct: 259 -----EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VL 311
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL ERE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R +K++
Sbjct: 312 DTLTEREERVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRKLK 371
Query: 494 AML 496
L
Sbjct: 372 DFL 374
>gi|148241197|ref|YP_001226354.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147849507|emb|CAK27001.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 324
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/318 (31%), Positives = 183/318 (57%), Gaps = 27/318 (8%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK---------ERLG 236
P + + ++ Y++ + LL+H + + L ++++ + L++ + K E L
Sbjct: 10 PPVDGDLVRSYLRDIGRVPLLSHEQEITLGRQVQELVRLEEAEAEFKMRQGHEPSREELA 69
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
SS IS L+ L+ A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG
Sbjct: 70 SSFGISPAVLRRRLINGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRG 129
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 355
+EKFD ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G
Sbjct: 130 VEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELG 189
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
TP+V +AE+L + + +V++ + SL+ + G++ + + + ++N+
Sbjct: 190 RTPTVGELAEFLELPEPEVKDLLSRARQPVSLEMKV--------GDSDDTELCE-LLQND 240
Query: 416 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRER 471
P VD LK ++ L + L + ++++ YG+D +E ++ I + +G+SR+R
Sbjct: 241 APMPHELVDGDCLKGDMRSL-LEQLPPLQGRVLKMRYGIDVEEPMSLTGIGRELGMSRDR 299
Query: 472 VRQV---GLVALEKLKHA 486
VR + GL L +L A
Sbjct: 300 VRNLERDGLAGLRRLSEA 317
>gi|168704760|ref|ZP_02737037.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM
2246]
Length = 556
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 147/247 (59%), Gaps = 8/247 (3%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A+ L N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +GFK STY
Sbjct: 308 EYEQAKRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEHRRGFKFSTY 367
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + +RN +K L+E G P+V A+ +S
Sbjct: 368 ATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVSKQLLQELGREPTVQETADAAKIS 427
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN 430
++ + + + SLDR S + G+ +I DN VE +P + + LKD++
Sbjct: 428 YEECKRVLKISRQPISLDRPVGESEDSYFGD----FIEDNSVE-SPVNAATNEMLKDKIE 482
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL REREII+L YGL D T E++ + ++RERVRQ+ A+ KL+H R
Sbjct: 483 G-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRS 541
Query: 490 KKMEAML 496
+++E L
Sbjct: 542 RQLEGFL 548
>gi|444413250|ref|ZP_21209566.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0153]
gi|444273409|gb|ELU79082.1| RNA polymerase sigma factor RpoD [Streptococcus pneumoniae PNI0153]
Length = 369
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 148/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ + KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVYKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|427421683|ref|ZP_18911866.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425757560|gb|EKU98414.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 318
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 177/307 (57%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK---ERLGSSLR------ISR 243
++ Y+K + LLTH + V K+++ ++L ++ +L+ ER S L IS
Sbjct: 11 VRTYLKEIGRVPLLTHEQEVVYGKQVQRFVALQAYRTKLEASLEREPSKLEWAEAAGISV 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + LA+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 71 DELTQAMDAGDLAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPL 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQKLGRAATVAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE + ++ K+VR+ E SLD G+ + + D + +P +D
Sbjct: 191 LAEEVKLTPKQVRDYLEKSRSPLSLDLRI--------GDNQDTNLGD--LLEDPGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++++L + L +++ ++ L +GLD + +T I + + +SRERVRQ+
Sbjct: 241 YATQSLLRKDLDRL-MAELTPQQQRVLHLRFGLDDGKNMTLAKIGEMLSISRERVRQIER 299
Query: 478 VALEKLK 484
AL +L+
Sbjct: 300 EALTRLR 306
>gi|428306280|ref|YP_007143105.1| RNA polymerase, sigma subunit, RpsC/SigC [Crinalium epipsammum PCC
9333]
gi|428247815|gb|AFZ13595.1| RNA polymerase, sigma subunit, RpsC/SigC [Crinalium epipsammum PCC
9333]
Length = 422
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 157/260 (60%), Gaps = 13/260 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++ P+L+ I E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 168 LTVPDLEQIQKEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTMGLERAVEKF 227
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ + +L + +G TP+
Sbjct: 228 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKVQRQLSQTQGHTPT 287
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
++ IA L M+ +VR + + SL+ + G+ + + D + +P
Sbjct: 288 IEEIAAALEMTPPQVREVLLRVPRSVSLEIKV--------GKEKDTELGDLLEAEDISPE 339
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
+ AL+ E+ KL + L RER++I + +G+ D + +I + + LSRERVRQ+
Sbjct: 340 ELLMREALQIELLKL-LADLTSRERDVISMRFGMVDGNVYSLSEIGRALDLSRERVRQIE 398
Query: 477 LVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 399 SKALQKLRQPKRRNRVRDYL 418
>gi|427718031|ref|YP_007066025.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
7507]
gi|427350467|gb|AFY33191.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
7507]
Length = 390
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L E+L +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREKLSEQLDRDPKDSEWAEAVQ 138
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 173/303 (57%), Gaps = 32/303 (10%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLAR----------E 258
E V + I G+S+DD ++ LKE I R L S E +LA+ +
Sbjct: 88 EEVDIDLSIPEGISIDDPVRMYLKE-------IGRVPLLSADEEIALAKRMEAGDEEAQK 140
Query: 259 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 318
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 141 ELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQ 200
Query: 319 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 377
++RA+ + +RT+R+P H+ E + LIR ++ L++ G PS + IAE + +S ++VR
Sbjct: 201 AITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVR-- 258
Query: 378 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLII 434
++ + +E SL GE S++ D ++ P LK+++ + ++
Sbjct: 259 -----EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VL 311
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL ERE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R +K++
Sbjct: 312 DTLTEREERVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRKLK 371
Query: 494 AML 496
L
Sbjct: 372 DFL 374
>gi|389575813|ref|ZP_10165841.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium
cellulosolvens 6]
gi|389311298|gb|EIM56231.1| RNA polymerase sigma factor, sigma-70 family [Eubacterium
cellulosolvens 6]
Length = 373
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 153/247 (61%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY W
Sbjct: 135 VAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATW 194
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ +NMS ++
Sbjct: 195 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPEEIAKNMNMSVER 254
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 430
VR ++ + +E SL GE S++ D + N P LK+++
Sbjct: 255 VR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDENVPVPADAAAFTMLKEQLE 306
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R
Sbjct: 307 E-VLGTLAEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 365
Query: 490 KKMEAML 496
+K++ L
Sbjct: 366 RKLKDYL 372
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 229 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 288
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 289 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 348
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 349 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 398
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 399 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 457
Query: 484 KHAAR 488
+H R
Sbjct: 458 RHPNR 462
>gi|411007263|ref|ZP_11383592.1| RNA polymerase principal sigma factor [Streptomyces globisporus
C-1027]
Length = 363
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + +L L S L + +L +++
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEERLAGTPDLDSRLAV---DLDRLVVM 122
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 123 GRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 182
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + IA L+++
Sbjct: 183 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVELDLTP 242
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE D + + V+ A L +
Sbjct: 243 ERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 294
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L +L+ A
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 489 KKKMEAML 496
++ L
Sbjct: 355 ADQLRGYL 362
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 165/301 (54%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ H L + L + EL ++ +
Sbjct: 49 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTSDDLSEE---RKAELSEVVRDGEE 104
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 105 AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 164
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A +++KKV
Sbjct: 165 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATHEELAAESGIAEKKV 224
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ N + V L+D++ + ++
Sbjct: 225 ADLLDHARDPVSLDMPVGADEDAPLGD----FIEDSEA-ANAENSVISTLLQDDLRR-VL 278
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE +IRL YGLD + T + I K LSRERVRQ+ + KL+H R K+
Sbjct: 279 ATLDDREEHVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLRHGERADKLR 338
Query: 494 A 494
A
Sbjct: 339 A 339
>gi|428206989|ref|YP_007091342.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428008910|gb|AFY87473.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 392
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L +RL +++
Sbjct: 81 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSDRLDREPQDSEWAEAVK 140
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 141 QNLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 200
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 201 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 260
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 261 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 310
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 311 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 369
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 370 IEAKALRKLRHPNR 383
>gi|269836760|ref|YP_003318988.1| RpoD subfamily RNA polymerase sigma-70 subunit [Sphaerobacter
thermophilus DSM 20745]
gi|269786023|gb|ACZ38166.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerobacter
thermophilus DSM 20745]
Length = 538
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 94/256 (36%), Positives = 153/256 (59%), Gaps = 16/256 (6%)
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
+ ++ +AR+KL +N+RLV+S+A++Y G M DLVQ G +GL+R +EKF KGF
Sbjct: 292 EEFVVRGDIARKKLTEANLRLVVSVAKKYGGRGMSMLDLVQEGNLGLIRAVEKFQHHKGF 351
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + +RT+R+P H+ E++ LIR ++ +E G P+ + IA
Sbjct: 352 KFSTYATWWIRQAITRAIADQARTIRIPVHMVEQINRLIRTSRRLQQELGREPTSEEIAA 411
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA- 424
+ + KVR ++ + +E SL GE S + D +E++ D A
Sbjct: 412 EMGLPPDKVR-------EILKISQEPV-SLEMPIGEEEDSNLGDF-IEDSKALAPSDAAS 462
Query: 425 ---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
LK++V+ ++ +LG+RER ++ L +GLD T E++ + G++RER+RQ+ AL
Sbjct: 463 LKLLKEQVDD-VLGSLGDRERRVLELRFGLDDGRTRTLEEVGREFGVTRERIRQIEAKAL 521
Query: 481 EKLKHAARKKKMEAML 496
KL+H +R KK+ L
Sbjct: 522 RKLRHPSRSKKLRDYL 537
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 172/314 (54%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL---------DDHKLRLKERLGSSLR 240
++ ++ Y++ + LL E + L++KI L L D+ KL + + +
Sbjct: 139 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEWAALVE 198
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 199 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 258
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 259 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 318
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 415
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 319 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 368
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 369 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 427
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 428 IEAKALRKLRHPNR 441
>gi|254416030|ref|ZP_05029786.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196177205|gb|EDX72213.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 380
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 173/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + RL ++L +
Sbjct: 69 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLYDQLEREPKEGEWAKEVE 128
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 129 MELPAFRQRLFLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 188
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 189 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPT 248
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA+ + M+ +K+R F P SL G+ S + D +E +
Sbjct: 249 EEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 298
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 299 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 357
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 358 IEAKALRKLRHPNR 371
>gi|169351085|ref|ZP_02868023.1| hypothetical protein CLOSPI_01864 [Clostridium spiroforme DSM 1552]
gi|169292147|gb|EDS74280.1| RNA polymerase sigma factor RpoD [Clostridium spiroforme DSM 1552]
Length = 415
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 113/316 (35%), Positives = 180/316 (56%), Gaps = 50/316 (15%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + +K Y+K + ELL+H + ++L+KKI G
Sbjct: 140 INDPVKMYLKEIGRVELLSHDDEIKLAKKILEG--------------------------- 172
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 173 ----DEAAKKELAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKF 228
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R +L ++E G P+ + IAE +
Sbjct: 229 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRLLIQELGREPTAEEIAERI 288
Query: 368 N-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA- 424
+ M+ +KVR I K+ SL+ P SL GE S++ D +E+ DD+A
Sbjct: 289 DGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHLGD-FIEDEGVMSPDDYAA 338
Query: 425 ---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
LKDE+N+ +++ L +RE +++RL +GLD T E++ K ++RER+RQ+ AL
Sbjct: 339 NELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVGKEFSVTRERIRQIEAKAL 397
Query: 481 EKLKHAARKKKMEAML 496
KLKH +R K+++ L
Sbjct: 398 RKLKHPSRSKRLKDFL 413
>gi|289578595|ref|YP_003477222.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermoanaerobacter
italicus Ab9]
gi|289528308|gb|ADD02660.1| RNA polymerase, sigma 70 subunit, RpoD subfamily
[Thermoanaerobacter italicus Ab9]
Length = 273
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 91/244 (37%), Positives = 154/244 (63%), Gaps = 9/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++ + SN+RLV+SIA+ Y G DL+Q G +GLL+ +E+FD KG+K STY WW
Sbjct: 36 AKKRFIESNLRLVVSIAKGYVGKGISFPDLIQEGNLGLLKAVERFDYRKGYKFSTYATWW 95
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
I+Q ++RA+ + +RT+R+P H+ E + L++ K L++ G PS++ IAE +N+S+KK
Sbjct: 96 IKQTITRAIADQARTIRIPVHMVESVNKLLKIQKQFLQKLGREPSIEEIAEEMNISEKKA 155
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + + SL+ NG G+ IAD +P ++ LK++V++ ++
Sbjct: 156 KVLLEIVQGIVSLEEPVGEDENGKLGDI----IADKEA-VDPVEELESMLLKEQVDE-VL 209
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRI-GLSRERVRQVGLVALEKLKHAARKKKM 492
TL RE +++RL +GLD + T E++ K + G+SRERVRQ+ AL++L+H R +++
Sbjct: 210 STLAPREEKVLRLRFGLDDGKIRTLEEVGKELGGISRERVRQIETKALKRLRHPNRSRRL 269
Query: 493 EAML 496
+ L
Sbjct: 270 KEFL 273
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 91/251 (36%), Positives = 154/251 (61%), Gaps = 14/251 (5%)
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
M+ A+++L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K ST
Sbjct: 328 MDAEQAKKELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 387
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IA+ +++
Sbjct: 388 YATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQELGREPSSEEIAKRMDI 447
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALK 426
KVR KV + +E SL GE S++ D +R +P V + LK
Sbjct: 448 PVAKVR-------KVLKIAQEPI-SLETPIGEEEDSHLGDFIEDRSMVSPAEAVINVNLK 499
Query: 427 DEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
D+ + ++ TL RE ++I++ +GL D T E++ + ++RER+RQ+ AL KL+H
Sbjct: 500 DQTAQ-VLRTLTAREEKVIKMRFGLEDGSEHTLEEVGQSFAVTRERIRQIEAKALRKLRH 558
Query: 486 AARKKKMEAML 496
+R +K+ A L
Sbjct: 559 PSRSRKLRAFL 569
>gi|392406805|ref|YP_006443413.1| sigma-70 family RNA polymerase sigma factor [Anaerobaculum mobile
DSM 13181]
gi|390619941|gb|AFM21088.1| RNA polymerase sigma factor, sigma-70 family [Anaerobaculum mobile
DSM 13181]
Length = 408
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 146/242 (60%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD KGFK STY WW
Sbjct: 171 AKKKLIEANLRLVVSIAKKYIGRGLSFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWW 230
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ +++ G P+ + IA+ L + +KV
Sbjct: 231 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLVQQLGREPTTEEIAQALGLPPEKV 290
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SL+ GE S + D ++ NP L++++ +
Sbjct: 291 EDIQRIAQEPVSLETPI--------GEEEDSQLGDFLEDKESPNPEEATAGQLLREQLEE 342
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
+ + L ERERE++RL +GL D T E++ KR ++RER+RQ+ AL KL+H +R K
Sbjct: 343 M-LDELTEREREVLRLRFGLEDGHAHTLEEVGKRFNVTRERIRQIEAKALRKLRHPSRSK 401
Query: 491 KM 492
++
Sbjct: 402 RL 403
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 216 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 275
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 276 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 335
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 336 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 385
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 386 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 444
Query: 484 KHAAR 488
+H R
Sbjct: 445 RHPNR 449
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 106/314 (33%), Positives = 175/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + + ++L +++
Sbjct: 93 EDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDEIDDQLDDEPTDADWANAVD 152
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L + A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 153 MPLPAFRRRLYQGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 212
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 213 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPT 272
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 273 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 322
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 323 PEDEVSKSLLREDLES-VLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 381
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 382 IEAKALRKLRHPNR 395
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 92/235 (39%), Positives = 141/235 (60%), Gaps = 9/235 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+
Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R ++ SL+ + G+ + I NP V L++++ ++
Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VL 329
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
TL RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 330 ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 384
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/296 (35%), Positives = 168/296 (56%), Gaps = 28/296 (9%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISRPELQSILMECSL 255
LLTH E + L K+++ +SL L + L ++ IS EL +I+
Sbjct: 3 LLTHEEEILLGKQVQKLMSLIAIHSSLVDTLDREPTRTEWAAAGGISEAELAAIVTAGEQ 62
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD SKG++ STY YWW
Sbjct: 63 AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPSKGYRFSTYAYWW 122
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ E SRT+RLP H+ E+L I+ A+ + ++ G TP+ IA+ + K+V
Sbjct: 123 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQFTQQHGRTPTASEIAQATGFTIKQV 182
Query: 375 RNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
R LDR P SL+ G+ + + D + + DD+A LK ++
Sbjct: 183 RE---------YLDRSRQPLSLDLKVGDNQDTQLGD--LLEDDGQTPDDYATASSLKSDL 231
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+ I+ L +++++I L +GL D + +T I + +SRERVRQ+ AL KL+
Sbjct: 232 KR-IMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLR 286
>gi|254416308|ref|ZP_05030062.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196176990|gb|EDX72000.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 416
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 93/269 (34%), Positives = 160/269 (59%), Gaps = 13/269 (4%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K+R ++ EL+ + E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +
Sbjct: 153 KQRWAELAELTVKELEQVQAEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKI 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD- 409
+E+G T +++ IA+ L M +VR + + SL+ + G+ + + D
Sbjct: 273 SQEQGRTATIEDIAKELEMDAPQVREVLMRVPRSVSLEIKV--------GKEKDTELGDL 324
Query: 410 -NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
E +P + AL+ ++ +L + L RER++I + +GL D + +I + + L
Sbjct: 325 LETEETSPEDVLMREALQRDLQQL-LADLTSRERDVICMRFGLGDGHPYSLAEIGRALEL 383
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
SRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 384 SRERVRQIEAKALQKLRQPKRRNRVRDYL 412
>gi|111023771|ref|YP_706743.1| RNA polymerase sigma factor SigB [Rhodococcus jostii RHA1]
gi|384100772|ref|ZP_10001829.1| RNA polymerase sigma factor SigB [Rhodococcus imtechensis RKJ300]
gi|397737305|ref|ZP_10503977.1| RNA polymerase principal sigma factor hrdA [Rhodococcus sp. JVH1]
gi|419965923|ref|ZP_14481858.1| RNA polymerase sigma factor SigB [Rhodococcus opacus M213]
gi|432340395|ref|ZP_19589837.1| RNA polymerase sigma factor SigB [Rhodococcus wratislaviensis IFP
2016]
gi|110823301|gb|ABG98585.1| sigma factor, sigma 70 type, group 2 (proven non-essential)
[Rhodococcus jostii RHA1]
gi|383841678|gb|EID80955.1| RNA polymerase sigma factor SigB [Rhodococcus imtechensis RKJ300]
gi|396926744|gb|EJI93981.1| RNA polymerase principal sigma factor hrdA [Rhodococcus sp. JVH1]
gi|414568597|gb|EKT79355.1| RNA polymerase sigma factor SigB [Rhodococcus opacus M213]
gi|430774588|gb|ELB90174.1| RNA polymerase sigma factor SigB [Rhodococcus wratislaviensis IFP
2016]
Length = 323
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 167/302 (55%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V LSK+I+ GL H L +RL + + +L +++ E
Sbjct: 30 YLNGIGRTALLTAADEVELSKRIEAGLYAA-HILETGKRLSPA---KKRDLATVVREGQS 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +AE + K+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAEESGIPAHKI 205
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D+ EN G+ L +V
Sbjct: 206 ADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDSEATSAENAVIAGL----LHSDVRS 257
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ + KL+ R +
Sbjct: 258 -VLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKLRQGDRAE 316
Query: 491 KM 492
++
Sbjct: 317 RL 318
>gi|374854339|dbj|BAL57223.1| RNA polymerase primary sigma factor [uncultured Chloroflexi
bacterium]
gi|374855178|dbj|BAL58041.1| RNA polymerase primary sigma factor [uncultured Chloroflexi
bacterium]
Length = 405
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 173/307 (56%), Gaps = 21/307 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+K V LLT E V L+++I+ G + R G+ R EL+ ++ +
Sbjct: 112 YLKEVSRIPLLTAEEEVELAQRIERGRMAREELAR-----GNVSPKRRAELRKLIEDGWA 166
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
ARE L+ +N RLV+S+A++Y G DL+Q G IGL+R +KFD +G K STY WW
Sbjct: 167 AREHLITANSRLVISVAKKYMGRGVPFLDLIQEGNIGLIRATKKFDYRRGHKFSTYATWW 226
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ V+RA+ + RT+R+P H+ +++ + + +L +K G P++D +AE L + +KV
Sbjct: 227 IRQAVTRAIADQGRTIRVPVHMGDQINKLLRVQHQLTQKLGREPTIDELAEALGVPPRKV 286
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
N + + SL+ P + + + +E+ D+ A L++++N
Sbjct: 287 ENMIQVARRPLSLE---------TPTDDEEDSVLGDFIEDEEAAPPDETATYNLLREQLN 337
Query: 431 KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ I+ TL RE I++L YG LD + T E++ +++G++RERVRQ+ AL +L+H + +
Sbjct: 338 E-ILSTLPPREVRILQLRYGLLDGQSYTLEEVGRKMGVTRERVRQIEAQALSRLRHPSIR 396
Query: 490 KKMEAML 496
+K+ L
Sbjct: 397 RKLRDYL 403
>gi|443323548|ref|ZP_21052553.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442786728|gb|ELR96456.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 381
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 147/238 (61%), Gaps = 13/238 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+SIA++Y N G ++ DL+Q G +GL + ++KFD +KG++ STY YWW
Sbjct: 145 AKNTLLAANLRLVVSIAKKYQNRGLELLDLIQEGTLGLEKAVDKFDPTKGYRFSTYAYWW 204
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 374
IRQG++RA+ S T+R+P H+ E+L I+ A+ ++ ++KG TP+++ IA L + K++
Sbjct: 205 IRQGITRAIATQSHTIRIPVHITEKLNKIKKAQRKISQQKGYTPTLEDIATELGTTAKQI 264
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 432
R I + SL+ + G+ + + D E++P + +L ++ KL
Sbjct: 265 REILVRIPRSVSLESKI--------GKDKDTELGDLLETTESSPEEVLIQESLHQDLEKL 316
Query: 433 IIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ L RERE+I L YGL + C + +I + + LSRERVRQ+ A++KL+ R+
Sbjct: 317 -LAQLTRREREVISLRYGLKEGMCYSLSEIGRILALSRERVRQIETKAMQKLRQPQRR 373
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 177/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L+++I L L+ R++E+L
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARRIADLLELE----RIREKLVEHNHCEPEDREWA 135
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
S++ ++ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 136 SAVDMALPEFRRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 195
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 196 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 255
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 256 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 305
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 306 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 364
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 365 RIRQIEAKALRKLRHPNR 382
>gi|443313785|ref|ZP_21043395.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442776198|gb|ELR86481.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 440
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 86/253 (33%), Positives = 155/253 (61%), Gaps = 15/253 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
+L+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +K
Sbjct: 190 QLEQIQTQGVRAKEHMIQANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 249
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ + ++ +EKG TP+++ I
Sbjct: 250 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKVQRKIAQEKGRTPTIEEI 309
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L ++ K++R+ + + SL+ + G+ + + D + +D
Sbjct: 310 AAELEITPKQLRDVLLRVPRSVSLETKV--------GKDKDTELGD--LLETDTISPEDV 359
Query: 424 ALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
+++ + + ++ L +RER++I + +GL D + +I + + LSRERVRQ+ A
Sbjct: 360 LMRESLQRDLQYLLTDLSDRERDVILMRFGLGDGHAYSLAEIGRALDLSRERVRQIESKA 419
Query: 480 LEKLKHAARKKKM 492
L+KL+ R+ ++
Sbjct: 420 LQKLRQPKRRNRV 432
>gi|315652381|ref|ZP_07905370.1| RNA polymerase sigma factor rpoD [Lachnoanaerobaculum saburreum DSM
3986]
gi|315485355|gb|EFU75748.1| RNA polymerase sigma factor rpoD [Lachnoanaerobaculum saburreum DSM
3986]
Length = 410
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 344
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 491 KMEAML 496
++ L
Sbjct: 404 RIRDFL 409
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 166/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG S + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLNTKKRLGES---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ +
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGI--PAE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IEREVMAKLRNGERADRL 314
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 167/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 36 YLNGIGKTALLTAADEVELAKRIEAGLYAQ-HLLATRKRLGEN---RKRDLAAVVRDGEA 91
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 92 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 151
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ V+
Sbjct: 152 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGI--PVE 209
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 210 KINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 261
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 262 ---------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 306
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 307 IEREVMAKLRNGDRADRL 324
>gi|310777992|ref|YP_003966325.1| RpoD subfamily RNA polymerase sigma-70 subunit [Ilyobacter
polytropus DSM 2926]
gi|309747315|gb|ADO81977.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ilyobacter
polytropus DSM 2926]
Length = 408
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 86/240 (35%), Positives = 152/240 (63%), Gaps = 8/240 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A ++LV +N+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 171 ATQQLVEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 230
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G + + +AE L M +K+
Sbjct: 231 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDATPEVLAERLGMESEKI 290
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E SL+ + G+ ++ DN++ +P+ + LK++++ ++
Sbjct: 291 KAILEMNQDPISLETPVGSEEDSELGD----FVEDNKM-LSPYEQTNRNLLKEQLDD-VL 344
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+L ERE +++R YGLD C T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 345 QSLSEREEKVLRFRYGLDDGCPRTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLE 404
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 148/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL K + +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKXRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLR 240
++ ++ Y++ + LL E + L++KI L L++ + + R G + +
Sbjct: 149 EDSIRVYLQEIGRIRLLRPDEEIELARKISDLLYLEELAGQFEGRKGYYPDNKEWAALVE 208
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S + + LM A+ K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 209 MSLIKFRRRLMLGRRAKAKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 268
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 269 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 328
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 415
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 329 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 378
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 379 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 437
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 438 IEAKALRKLRHPNR 451
>gi|386284675|ref|ZP_10061894.1| RNA polymerase sigma factor RpoD [Sulfurovum sp. AR]
gi|385344078|gb|EIF50795.1| RNA polymerase sigma factor RpoD [Sulfurovum sp. AR]
Length = 617
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 97/259 (37%), Positives = 150/259 (57%), Gaps = 24/259 (9%)
Query: 241 ISRPELQSILMEC-------SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
+S +LQ IL + +A+ ++ SN+RLV+SIA+RY N G DL+Q G IGL
Sbjct: 356 LSEEKLQEILEQIRQGKAKSEVAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGL 415
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--L 351
++ ++KF+ KG+K STY WWIRQ +SRA+ + +RT+R+P H+ E + I N +R L
Sbjct: 416 MKAVDKFEYEKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRI-NKIIRKHL 474
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
+E G P +D IAE + +S KV+N + + SL+ +G G+
Sbjct: 475 QETGKEPDLDTIAEEVGLSVDKVKNVIKITKEPVSLETPVGDEDDGRFGDF--------- 525
Query: 412 VENNPWHGVDDWALKDEVNKLI---IVTLGEREREIIRLYYGL--DKECLTWEDISKRIG 466
+E+ D LKD++N I + L ERE+ +IR+ +GL D+ T E+I K +
Sbjct: 526 IEDKTTLSPTDVVLKDDLNNQIDDVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELS 585
Query: 467 LSRERVRQVGLVALEKLKH 485
++RERVRQ+ A++KLKH
Sbjct: 586 VTRERVRQIESSAIKKLKH 604
>gi|418236598|ref|ZP_12863166.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19690]
gi|353892830|gb|EHE72578.1| RNA polymerase sigma factor rpoD [Streptococcus pneumoniae GA19690]
Length = 369
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 148/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 432 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE ++ L +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLHLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 491 KM 492
+
Sbjct: 362 PL 363
>gi|302871329|ref|YP_003839965.1| RpoD subfamily RNA polymerase sigma-70 subunit
[Caldicellulosiruptor obsidiansis OB47]
gi|302574188|gb|ADL41979.1| RNA polymerase, sigma 70 subunit, RpoD subfamily
[Caldicellulosiruptor obsidiansis OB47]
Length = 417
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 175/313 (55%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT E + L+K+I+ G D+
Sbjct: 144 IDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQG---DEE--------------------- 179
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K
Sbjct: 180 -------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKF 232
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +
Sbjct: 233 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEM 292
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 293 NMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSM 344
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL
Sbjct: 345 LKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKL 403
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 404 RHPSRSKKLKDFL 416
>gi|419718484|ref|ZP_14245801.1| RNA polymerase sigma factor RpoD [Lachnoanaerobaculum saburreum
F0468]
gi|383305319|gb|EIC96687.1| RNA polymerase sigma factor RpoD [Lachnoanaerobaculum saburreum
F0468]
Length = 407
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 170 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 229
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 230 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 289
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 290 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 341
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 342 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 400
Query: 491 KMEAML 496
++ L
Sbjct: 401 RIRDFL 406
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 175/313 (55%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT E + L+K+I+ G D+
Sbjct: 144 IDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQG---DEE--------------------- 179
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K
Sbjct: 180 -------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKF 232
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +
Sbjct: 233 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEM 292
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 293 NMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSM 344
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL
Sbjct: 345 LKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKL 403
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 404 RHPSRSKKLKDFL 416
>gi|385682350|ref|ZP_10056278.1| RNA polymerase sigma factor SigB [Amycolatopsis sp. ATCC 39116]
Length = 341
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 169/301 (56%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ A+ V L+K+I+ G+ H L +L R EL++++ +
Sbjct: 48 YLNGIGKTALLSAADEVELAKRIEAGV-FAQHMLDTAPKLSPQ---RRKELEALVRDGHK 103
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 104 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 163
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A ++ +KV
Sbjct: 164 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATNEELAAESGIAVEKV 223
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 224 ADLLDHARDPVSLDMPVGTDEDAPLGD----FIEDSEA-TDAESAVISGLLQDDLRR-VL 277
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL ERE+++IR+ YGLD + T + I K GLSRERVRQ+ + KL+ R +++
Sbjct: 278 ATLDEREQQVIRMRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLRQGERAERLR 337
Query: 494 A 494
A
Sbjct: 338 A 338
>gi|443329722|ref|YP_007378793.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428682348|gb|AFZ61112.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 332
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 98/291 (33%), Positives = 164/291 (56%), Gaps = 18/291 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISRPELQSILMECSL 255
LLTH + + +K+++ + + K L E+L +++ L L + +
Sbjct: 37 LLTHEQEIFFAKQVQQMMVMLTAKEELSEKLQREPTRQEWADKMQLEEDMLLQQLSQGQI 96
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+K STY YWW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNIEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G T V IA+ LN+ +++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKRVQRELSQKLGHTADVTEIAQALNLEPRQI 216
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R + + SLD + G + D+ + +P + L +V+KL +
Sbjct: 217 RECLQFARQPVSLDM----GIGSEQGTQLQDMLKDDGM--SPERYTERELLYQDVHKL-L 269
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLK 484
L +++E++ L +GL C LT IS+RIG+ RERVRQ+ AL L+
Sbjct: 270 AKLTPQQKEVLILRFGLAGGCELTLVQISQRIGICRERVRQLEKQALTLLR 320
>gi|427731958|ref|YP_007078195.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427367877|gb|AFY50598.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 318
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 102/305 (33%), Positives = 169/305 (55%), Gaps = 18/305 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LLTH E + K+++ SL + + L +L + +
Sbjct: 11 VRSYLREIGRVPLLTHEEEIFYGKQVQRSSSLQEVREDLASKLDRQPTLEEWAKAAELDI 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AELNEAIADGEFAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPSASE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A L ++ K+VR E SLD + + GE A +P V
Sbjct: 191 LASELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA------SPEEFVMQ 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L ++ +L + L ++RE+I+L +GL D + LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSYDLERL-MEQLTPQQREVIKLRFGLMDGQALTLAKIGEILNISRERVRQIEREALT 303
Query: 482 KLKHA 486
KL+ +
Sbjct: 304 KLRKS 308
>gi|373106378|ref|ZP_09520681.1| RNA polymerase sigma factor RpoD [Stomatobaculum longum]
gi|371652753|gb|EHO18161.1| RNA polymerase sigma factor RpoD [Stomatobaculum longum]
Length = 413
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 177 AKKKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 236
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A+ L+M+++KV
Sbjct: 237 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELAKALDMTEEKV 296
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D +NN P V+ L++ +
Sbjct: 297 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVLTPEDNVESVMLREHIEA 348
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ + ++RER+RQ+ AL KL++ R K
Sbjct: 349 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRNPVRSK 407
Query: 491 KMEAML 496
++ L
Sbjct: 408 RIRDFL 413
>gi|427701422|ref|YP_007044644.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
gi|427344590|gb|AFY27303.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
Length = 432
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 113/331 (34%), Positives = 181/331 (54%), Gaps = 29/331 (8%)
Query: 176 GSKQLRSM-ISPELI--QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK 232
G+K L S+ + P+ + ++ ++ Y++ + LL E + L++KI L L++ +
Sbjct: 104 GAKALASIKVGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEEKAAEFE 163
Query: 233 ERLG---------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 283
G + + + + LM A+EK+V+SN+RLV+SIA++Y N G
Sbjct: 164 ADKGHFPDTKEWAAIFDMPLIKFRRRLMLGRRAKEKMVLSNLRLVVSIAKKYMNRGLSFQ 223
Query: 284 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGL 343
DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E +
Sbjct: 224 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISR 283
Query: 344 IRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGE 401
I+ L +E G P+ + IAE + M+ +K+R F P SL G+
Sbjct: 284 IKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGK 334
Query: 402 THHSYIADNRVE---NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-T 457
S + D +E NP V L++++ ++ TL RER+++RL YGLD + T
Sbjct: 335 EEDSRLGDF-IEADIENPEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKT 392
Query: 458 WEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
E+I + ++RER+RQ+ AL KL+H R
Sbjct: 393 LEEIGQIFDVTRERIRQIEAKALRKLRHPNR 423
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 94/308 (30%), Positives = 176/308 (57%), Gaps = 24/308 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LL+H E +R K+++ +L + + L + G + ++
Sbjct: 25 VRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEMREELATQSGREPSVEEWAKAANLNP 84
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 85 ADLLEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 144
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G P+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGE 204
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A L ++ K+VR E SLD G+ + + + + + +P +D
Sbjct: 205 LANELELTPKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 423 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ ++ ++ ++++ L +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 255 FVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 314
Query: 479 ALEKLKHA 486
AL KL+ +
Sbjct: 315 ALTKLRKS 322
>gi|373468298|ref|ZP_09559555.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
gi|371766389|gb|EHO54644.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
Length = 410
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 344
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 491 KMEAML 496
++ L
Sbjct: 404 RIRDFL 409
>gi|344996804|ref|YP_004799147.1| RpoD subfamily RNA polymerase sigma-70 subunit
[Caldicellulosiruptor lactoaceticus 6A]
gi|343965023|gb|AEM74170.1| RNA polymerase, sigma 70 subunit, RpoD subfamily
[Caldicellulosiruptor lactoaceticus 6A]
Length = 419
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 175/313 (55%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT E + L+K+I+ G D+
Sbjct: 146 IDDPVRMYLKEIGKIPLLTPEEEIELAKRIEQG---DEE--------------------- 181
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K
Sbjct: 182 -------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKF 234
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +
Sbjct: 235 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEM 294
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 295 NMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSM 346
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL
Sbjct: 347 LKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKL 405
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 406 RHPSRSKKLKDFL 418
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 177/315 (56%), Gaps = 24/315 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LL +E V L+ KI+ G D +L+ + ++R E Q
Sbjct: 135 LTGDPVRMYLKEIGKVDLLNASEEVHLAMKIQAGT---DASKKLEAAENGEIELTRAE-Q 190
Query: 248 SILMECSL----AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
LM A++ L +N+RL +SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 191 RRLMRIEQVGLDAKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYT 250
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R K L++ G P+ +
Sbjct: 251 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQKELLQDLGREPTPEE 310
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 418
I E + MS +VR ++ + +E SL GE S + D +E++ P
Sbjct: 311 IGEQMKMSADRVR-------EIQKISQEPV-SLETPIGEEEDSSLGDF-IEDSTAVAPPD 361
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D L++++N+ ++ L +RER++I+ +GL D T E++ + G++RER+RQ+
Sbjct: 362 AASDSMLREQLNQ-VLDGLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIES 420
Query: 478 VALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 421 KTLAKLRHPSRSGRL 435
>gi|159896548|ref|YP_001542795.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159889587|gb|ABX02667.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 400
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 179/316 (56%), Gaps = 23/316 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG------LSLDDHKLRLKERLGSSLRIS 242
+ + ++ Y++ + LL + V L++ ++ G L +DH L ERL RI
Sbjct: 99 VNDTVRLYLREIGLVPLLKGEQEVELARAMEDGDKAQQELIENDHTLSDVERLALRRRID 158
Query: 243 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
R E ARE L +N+RLV+S+A++Y G + DL+Q G +GL+R +EKF+
Sbjct: 159 RGEQ---------AREHLTTANLRLVVSVAKKYIGRGLSLLDLIQEGNVGLIRAVEKFNY 209
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 361
+KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + ++R A+ +E G PS +
Sbjct: 210 TKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMMRTARRLTQENGREPSDE 269
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
+A+ L+++ +KVR+ + + SL+ + G+ ++ D ++E P
Sbjct: 270 ELAQALDLTVEKVRSIRKTSMEPVSLETPVGQEEDSQLGD----FLPDEKLE-APSDAAS 324
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
L+++V + ++ L ERE+ +++L +GL D T E++ K G++RER+RQ+ + AL
Sbjct: 325 HQMLREQVAQ-VLDQLTEREKRVLKLRFGLEDGTQRTLEEVGKEFGVTRERIRQIEVKAL 383
Query: 481 EKLKHAARKKKMEAML 496
KL+H KK+ L
Sbjct: 384 RKLRHPRFGKKLRDYL 399
>gi|443329714|ref|YP_007378785.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428682340|gb|AFZ61104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 328
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/305 (31%), Positives = 174/305 (57%), Gaps = 17/305 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ +V LLTH E + SK+++ ++L + K LK++L +++S
Sbjct: 20 VRNYLQDIVRVPLLTHEEEISSSKQVQQMITLQNKKETLKKQLNHEPSQKELAQYVQLSE 79
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
E++ I + A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFDS+
Sbjct: 80 MEVKEIFQKGVQAKQKMIAANLRLVVSIAKKYQGRNVEFMDLIQEGSLGLERGVEKFDST 139
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
+G+K STY YWWI QG++RA+ + SRT+RLP HL E+L ++ + L +K +PS+
Sbjct: 140 RGYKFSTYAYWWISQGMTRAISQQSRTIRLPIHLTEKLNKLKKVQRELSQKLNRSPSMFE 199
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
IAE + ++ ++R + SLD++ G +T + E +P V
Sbjct: 200 IAEKMQLNPAQIRELLMISRQPVSLDKQV-----GDNEDTELQELLTEAPEASPEIQVTQ 254
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALE 481
++ ++ L + L ++++++ L+YGL+ C LT +++ + +S RVR + AL
Sbjct: 255 NLMRQDIY-LSLRELTPQQQQVLILHYGLEHNCELTLTQVAQHLNISERRVRYLEKQALS 313
Query: 482 KLKHA 486
L+
Sbjct: 314 YLRRC 318
>gi|408419807|ref|YP_006761221.1| RNA polymerase sigma70 factor RpoD [Desulfobacula toluolica Tol2]
gi|405107020|emb|CCK80517.1| RpoD: RNA polymerase sigma70 factor [Desulfobacula toluolica Tol2]
Length = 635
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
+ ++ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 393 DADFSKRELVRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 452
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 453 ATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEMGKEPSPEEIAEKMEIP 512
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 427
+KVR +V + +E SL GE S++ D ++ + P D++L +
Sbjct: 513 IEKVR-------RVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKKFSIPSDAAIDFSLAE 564
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ K I+ TL RE +++R+ +G+ +K T E++ K ++RER+RQ+ AL KL+H
Sbjct: 565 QTRK-ILATLTPREEKVLRMRFGIGEKSDHTLEEVGKDFTVTRERIRQIEAKALRKLRHP 623
Query: 487 ARKKKMEAML 496
R KK++ +
Sbjct: 624 TRSKKLKTFI 633
>gi|342215570|ref|ZP_08708217.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 375
str. F0436]
gi|341586460|gb|EGS29860.1| RNA polymerase sigma factor RpoD [Peptoniphilus sp. oral taxon 375
str. F0436]
Length = 366
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 102/287 (35%), Positives = 167/287 (58%), Gaps = 16/287 (5%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMECS--LAREKLVMSNVRLVMSIAQ 273
+ G+S+DD ++ LKE SL + E+ + ME LA+++L +N+RLV+SIA+
Sbjct: 87 VPKGVSVDDPVRMYLKEIGKISLLTADEEVAIAKRMENGDELAKQELAEANLRLVVSIAK 146
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+
Sbjct: 147 RYVGRGMSFLDLIQEGNLGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRI 206
Query: 334 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + L+R + +++ G PS + IA+ +N+ +KVR + + SL+
Sbjct: 207 PVHMVETINKLVRVQRQLVQDLGRDPSPEEIAQEMNLDVEKVREIQKIAQEPVSLETPI- 265
Query: 393 PSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVNKLIIVTLGEREREIIRLYYG 450
GE S++ D ++ VD + L E ++ TL ERE++++ L +G
Sbjct: 266 -------GEEEDSHLGDFIPDDEVLSPVDAATFTLLKEQLDTVLTTLTEREKKVLTLRFG 318
Query: 451 L-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
L D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 319 LEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 365
>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 = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 92/235 (39%), Positives = 141/235 (60%), Gaps = 9/235 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+
Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R ++ SL+ + G+ + I NP V L++++ ++
Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VL 329
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
TL RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 330 ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 384
>gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101]
Length = 464
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 143/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 222 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 281
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+ + IAE +
Sbjct: 282 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESME 341
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 342 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 391
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 392 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 450
Query: 484 KHAAR 488
+H R
Sbjct: 451 RHPNR 455
>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|P18182.2|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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ AE V L+++++ GL + KLR G R++ + +++
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGL-FAEEKLRCSP--GLDDRLALDLDRLVVL- 155
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 215
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +A +L++
Sbjct: 216 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDL-- 273
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
A E +G+V L +E SL+ GE + D + + V+ A L +
Sbjct: 274 -----APERVGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQH 327
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 328 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAY 387
Query: 489 KKKMEAML 496
++ L
Sbjct: 388 ADQLRGYL 395
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K STY WW
Sbjct: 180 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +NM +KV
Sbjct: 240 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D +++ P LK+++ +
Sbjct: 300 R-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLE 351
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 352 -VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 410
Query: 491 KMEAML 496
K++ L
Sbjct: 411 KLKDFL 416
>gi|345014897|ref|YP_004817251.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
violaceusniger Tu 4113]
gi|344041246|gb|AEM86971.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
violaceusniger Tu 4113]
Length = 414
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/308 (33%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ E V L+++++ GL + KL L S L + +L +++
Sbjct: 118 FRQYLREIGRIPLLSAVEEVELARRVEAGL-FAEEKLGNTPDLDSQLAV---DLDRLVVL 173
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 174 GRVAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 233
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 234 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLLP 293
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 294 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 345
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 346 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 405
Query: 489 KKKMEAML 496
++ L
Sbjct: 406 ADQLRGYL 413
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 196
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +NMS ++V
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 256
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 257 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 308
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 309 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 367
Query: 491 KMEAML 496
K++ L
Sbjct: 368 KLKDYL 373
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 94/247 (38%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+I TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VIDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 490 KKMEAML 496
K+++ L
Sbjct: 368 KRLKDFL 374
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/237 (40%), Positives = 139/237 (58%), Gaps = 15/237 (6%)
Query: 257 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 316
+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWI
Sbjct: 203 KEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWI 262
Query: 317 RQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 375
RQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+R
Sbjct: 263 RQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLR 322
Query: 376 NATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 432
F P SL G+ S + D NP V L++++
Sbjct: 323 ---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDSENPELDVAKTLLREDLEG- 372
Query: 433 IIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 373 VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 429
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 92/235 (39%), Positives = 141/235 (60%), Gaps = 9/235 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 158 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 217
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+
Sbjct: 218 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 277
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R ++ SL+ + G+ + I NP V L++++ ++
Sbjct: 278 RFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VL 330
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
TL RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 331 ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 385
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 92/235 (39%), Positives = 141/235 (60%), Gaps = 9/235 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 157 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 216
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+
Sbjct: 217 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKL 276
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R ++ SL+ + G+ + I NP V L++++ ++
Sbjct: 277 RFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VL 329
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
TL RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 330 ATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 384
>gi|443309777|ref|ZP_21039464.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442780170|gb|ELR90376.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 319
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 97/254 (38%), Positives = 148/254 (58%), Gaps = 11/254 (4%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL I+ LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +K
Sbjct: 73 ELAKIIAAGELAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTK 132
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRI 363
G++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G P+ +
Sbjct: 133 GYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAGEL 192
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L ++ K+VR E SLD + + GE A +P V
Sbjct: 193 ATELELTTKQVREYLERARLPLSLDLRVGDNQDTELGELLEDTGA------SPEEFVMQS 246
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L +++ L++ L ++RE++ L +GL D + LT I R+ +SRERVRQ+ AL K
Sbjct: 247 SLATDLD-LLMADLTPQQREVLILRFGLSDGQALTLAKIGDRLNISRERVRQIEREALTK 305
Query: 483 LKHAARKKKMEAML 496
L+ RK M+ L
Sbjct: 306 LRK--RKADMDQYL 317
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 237 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 296
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 297 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 356
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 357 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 406
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 407 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 465
Query: 484 KHAAR 488
+H R
Sbjct: 466 RHPNR 470
>gi|434395299|ref|YP_007130246.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
gi|428267140|gb|AFZ33086.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
Length = 318
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 106/329 (32%), Positives = 181/329 (55%), Gaps = 28/329 (8%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL------- 235
M + + + ++ Y++ + LLTH + + K+++ +L + K L +L
Sbjct: 1 MKTAQTATDLVRTYLREIGRVPLLTHEQEILYGKQVQRSTALQEIKESLSAQLNREPTLE 60
Query: 236 --GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
+S + EL + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWAASAGLESAELSKAIALGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 353
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQ 180
Query: 354 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNR 411
+ G +V +A L +S K+VR L+R P SL+ G+ H + + +
Sbjct: 181 QLGRAATVSELAAELELSPKQVRE---------YLERARLPLSLDLRVGDNHDTELGE-- 229
Query: 412 VENNPWHGVDDWALKDEVNKLI---IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
+ + DD+ L+ ++ I + L ++RE++ L +GL D + +T I R+ +
Sbjct: 230 LLEDTGVSPDDFVLQSCMSTDIERMMADLTPQQREVLSLRFGLVDGQSMTLAKIGDRLNI 289
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
SRERVRQ+ AL KL+ RK M+ L
Sbjct: 290 SRERVRQIEREALTKLRK--RKADMDQYL 316
>gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana]
Length = 574
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 111/340 (32%), Positives = 187/340 (55%), Gaps = 20/340 (5%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE---ELLTHAEVVRLSKKIKTGLSLDDHK 228
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLKLLTVREEHELSAGIQDLLKLERLQ 297
Query: 229 LRLKERLG---------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 279
L ER G S+ + + L+ + +L ++K++ SN+RLV+SIA+ Y G
Sbjct: 298 TELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAG 357
Query: 280 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 339
++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 MNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVE 417
Query: 340 RLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL 398
++ A+ +L E G P + IAE +S K++ + SLDR+ + N
Sbjct: 418 ATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDRKIGMNQNLK 477
Query: 399 PGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLT 457
P E IAD + + ++ ++ +++K ++ +LG RE+++IR +G+ D T
Sbjct: 478 PSEV----IADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKT 531
Query: 458 WEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 497
++I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 532 LQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 571
>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|355624161|ref|ZP_09047550.1| hypothetical protein HMPREF1020_01629 [Clostridium sp. 7_3_54FAA]
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]
gi|354822100|gb|EHF06474.1| hypothetical protein HMPREF1020_01629 [Clostridium sp. 7_3_54FAA]
Length = 374
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 138 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV ++E L MS+ KV
Sbjct: 198 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSEALEMSEDKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 258 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVTPEGNVESVMLREHIDA 309
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 310 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 368
Query: 491 KMEAML 496
++ L
Sbjct: 369 RIRDFL 374
>gi|346310634|ref|ZP_08852649.1| hypothetical protein HMPREF9452_00518 [Collinsella tanakaei YIT
12063]
gi|345897589|gb|EGX67506.1| hypothetical protein HMPREF9452_00518 [Collinsella tanakaei YIT
12063]
Length = 443
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 182/314 (57%), Gaps = 22/314 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT A+ V L+ KI+ GL + +L+ + ++R E++
Sbjct: 137 LTGDPVRMYLKEIGKVDLLTAADEVDLAMKIEAGLEASN---KLEAADAGEIELTRAEMR 193
Query: 248 SI--LMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
+ + + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD K
Sbjct: 194 RLTRVEQVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYEK 253
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I
Sbjct: 254 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEI 313
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
++MS +VR ++ + +E SL GE S + D +E++ P
Sbjct: 314 GAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSQAVVPPEA 364
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
L++++ + ++ +L +RER++I L +GL D T E++ + G++RER+RQ+
Sbjct: 365 ASFSMLQEQLTQ-VLDSLADRERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESK 423
Query: 479 ALEKLKHAARKKKM 492
L KL+H +R K+
Sbjct: 424 TLAKLRHPSRSSKL 437
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/274 (35%), Positives = 162/274 (59%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRLKE---RLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+ L D K L E R +++ EL I + A+E ++ +N+RLV+S+A++Y N
Sbjct: 155 GIKLVDLKPTLSEGKRRWAEIAKLTVEELDQIQSQGIQAKEHMIKANLRLVVSVAKKYQN 214
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 215 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 274
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR + + SL+ + +
Sbjct: 275 TEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVREVLLRVPRSVSLETKVGKDKD 334
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L+ +++ L + L RERE+I + +GL D
Sbjct: 335 TELGELLETDTI------TPEETLMRESLQKDIHHL-LSDLTTREREVILMRFGLADGHS 387
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 388 YSLAEIGRALELSRERVRQIESKALQKLRQPKRR 421
>gi|357055215|ref|ZP_09116289.1| RNA polymerase sigma factor rpoD [Clostridium clostridioforme
2_1_49FAA]
gi|355383171|gb|EHG30257.1| RNA polymerase sigma factor rpoD [Clostridium clostridioforme
2_1_49FAA]
Length = 374
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 136 ARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA L++
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARLDLP---- 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
E + ++ + +E SL GE S++ D ++N P L +++ +
Sbjct: 252 ---VERVSEIMKMSQEPV-SLETPIGEEEDSHLGDFIQDDNVLVPQDAAAFTLLHEQLME 307
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
+++TL ERE++++RL +GLD T E++ K+ ++RER+RQ+ AL KL+H +R K
Sbjct: 308 -VLLTLTEREQKVLRLRFGLDDGRPRTLEEVGKQFNVTRERIRQIEAKALRKLRHPSRSK 366
Query: 491 KMEAML 496
K++ L
Sbjct: 367 KLKDYL 372
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 262 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 321
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 322 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 381
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 382 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 435
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 436 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 495
Query: 494 AMLV 497
V
Sbjct: 496 DFKV 499
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 140 ARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 199
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA L++
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARLDL----- 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
E + ++ + +E SL GE S++ D ++N P L +++ +
Sbjct: 255 --PVERVSEIMKMSQEPV-SLETPIGEEEDSHLGDFIQDDNVLVPQDAAAFTLLHEQLME 311
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
+++TL ERE++++RL +GLD T E++ K+ ++RER+RQ+ AL KL+H +R K
Sbjct: 312 -VLLTLTEREQKVLRLRFGLDDGRPRTLEEVGKQFNVTRERIRQIEAKALRKLRHPSRSK 370
Query: 491 KMEAML 496
K++ L
Sbjct: 371 KLKDYL 376
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 171/310 (55%), Gaps = 18/310 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL---------DDHKLRLKERLGSSLR 240
++ ++ Y++ + LL E + L++KI L L D+ KL + + +
Sbjct: 129 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPETKEWAALVE 188
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 189 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 248
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 249 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 308
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 309 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 362
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 478
V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+
Sbjct: 363 VAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 421
Query: 479 ALEKLKHAAR 488
AL KL+H R
Sbjct: 422 ALRKLRHPNR 431
>gi|427734848|ref|YP_007054392.1| RNA polymerase, sigma subunit, RpsC/SigC [Rivularia sp. PCC 7116]
gi|427369889|gb|AFY53845.1| RNA polymerase, sigma subunit, RpsC/SigC [Rivularia sp. PCC 7116]
Length = 419
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 93/260 (35%), Positives = 158/260 (60%), Gaps = 9/260 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R + +++ EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +
Sbjct: 156 KRRWAETAKLTVQELEQIQTQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTL 215
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++
Sbjct: 216 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKI 275
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP+++ +A L M+ +VR + + SL+ + + GE + +
Sbjct: 276 AQEKGRTPTLEDLAVELEMTPAQVREVLLRVPRSVSLETKVGKDKDTELGE----LLETD 331
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
V P + +L+ ++ L + L RER++I + +GL D + +I + + LSR
Sbjct: 332 GV--TPEEMLMRESLQRDLQNL-LADLTTRERDVILMRFGLADGHPYSLAEIGRALDLSR 388
Query: 470 ERVRQVGLVALEKLKHAARK 489
ERVRQ+ AL+KL+ R+
Sbjct: 389 ERVRQIESKALQKLRQPKRR 408
>gi|218248849|ref|YP_002374220.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8801]
gi|257061911|ref|YP_003139799.1| RpoD subfamily RNA polymerase sigma-70 subunit [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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 91/263 (34%), Positives = 163/263 (61%), Gaps = 9/263 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
KER I +L++I A+E+++ +N+RLV+S+A++Y + G ++ DL+Q G +
Sbjct: 154 KERWAQLADIELDQLETIEKVGIRAKEQMIKANLRLVVSVAKKYQHRGLELLDLIQEGTL 213
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ +L
Sbjct: 214 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAISTQSRIIRLPVHITEKLNKIKRAQRKL 273
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG +++ +++ L+MS +++R I + SL+ + G +T + +
Sbjct: 274 SQEKGRKATIEEMSKELDMSAEQIREVLLRIPRSVSLEVKV-----GKEKDTELVDLLET 328
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
+ +P + +L+ ++ ++++ L ERE+++I+L YG D C + DI + + LSR
Sbjct: 329 ECQ-SPEESLISESLRKDL-QVLLEDLTEREQDVIKLRYGFEDGTCYSLADIGRVLELSR 386
Query: 470 ERVRQVGLVALEKLKHAARKKKM 492
ERVRQ+ AL+KL+ R+ ++
Sbjct: 387 ERVRQIEAKALQKLRQPRRRNQI 409
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/290 (33%), Positives = 166/290 (57%), Gaps = 17/290 (5%)
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLK---------ERLGSSLRISRPELQSILMECSLA 256
+ HAE + LS+KI+ L +D + + E L +L+IS L+S + + A
Sbjct: 65 IDHAEEIELSRKIQQKLLIDQARQEWRQQRGEDPSDEALAEALQISVSTLRSRIRQGEQA 124
Query: 257 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 316
+ KL+ +N+RLV+S+A++Y N G DL+Q G IGL+R EKF++ +GF+ STY +WWI
Sbjct: 125 QRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNIGLIRATEKFNAERGFRFSTYAHWWI 184
Query: 317 RQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVR 375
RQG++R + +RT+RLP H+ +++ L++ L + +G P+ +AE L + KK+R
Sbjct: 185 RQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMKLQGRRPTEAELAEALGIKVKKLR 244
Query: 376 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIV 435
+A SLD P G GE+ + + + P+ G+ +++ +V + +
Sbjct: 245 MIQQAAALPLSLD---VPV--GQEGESRLGDLLQDERQEQPFQGILVQSMQQDV-RSAMQ 298
Query: 436 TLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
TL ER+++ L YGLD ++ T ++ L+RER+RQ+ AL KL+
Sbjct: 299 TLKPIERQVLELRYGLDGQQARTLREVGDHFNLTRERIRQIERDALRKLR 348
>gi|402312660|ref|ZP_10831584.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium ICM7]
gi|400369118|gb|EJP22121.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium ICM7]
Length = 410
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 344
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 491 KMEAML 496
++ L
Sbjct: 404 RIRDFL 409
>gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea]
Length = 575
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 167/302 (55%), Gaps = 18/302 (5%)
Query: 196 YVKGVV-SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR---------ISRPE 245
Y++G S LLT +E LS I+ L L+ LK R G S I +
Sbjct: 267 YLRGATNSSRLLTSSEETELSAGIQDLLKLEKLHDELKVRFGKSPSFVQWAAAAGIDQRT 326
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+ L + ++K++ SNVRLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 327 LRRRLNHGTFCKDKMIKSNVRLVISIAKNYQGSGMNLQDLVQEGCRGLVRGAEKFDASKG 386
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIA 364
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ + L E G P+ + +A
Sbjct: 387 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLLSENGKQPNNEEVA 446
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E +S K++ SLD++ ++N P E IAD E +
Sbjct: 447 EATGLSMKRLTAVLMTPKAPRSLDQKIGFNMNLKPSEV----IADPEAETAE-DLLTKQF 501
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ ++ K ++ TL RE+++IR +GL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 502 MRQDLEK-VLDTLSSREKQVIRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKL 560
Query: 484 KH 485
++
Sbjct: 561 QN 562
>gi|295098975|emb|CBK88064.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium cylindroides
T2-87]
Length = 368
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 115/317 (36%), Positives = 183/317 (57%), Gaps = 26/317 (8%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQ 247
I + +K Y+K + LL E ++K+I+ G + K +L+E L I R +L
Sbjct: 67 INDPVKMYLKEIGQIPLLDPKEEPIIAKRIQDGEA---AKKKLEE---PDLDIEERKKLA 120
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
S++ + A++ L+ SN+RLV+SIA++Y G DL+Q G GL++ +EKFD +KGFK
Sbjct: 121 SVVADGEEAKQVLISSNLRLVVSIAKKYVGRGMLFLDLIQEGNCGLIKAVEKFDYTKGFK 180
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEY 366
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + +++ G P + IAE
Sbjct: 181 FSTYATWWIRQSITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPLPEEIAEK 240
Query: 367 L-NMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
+ N++ KVR I K+ +LD P SL GE S++ D +E+ DD+
Sbjct: 241 MENITADKVRE----IQKI-ALD----PVSLETPIGEEDDSHLGD-FIEDKETLSPDDYT 290
Query: 425 ----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
LKDE+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ A
Sbjct: 291 NNQLLKDEINN-VLQGLTEREEKVLRLRFGLMDGRTRTLEEVGKEFNVTRERIRQIEAKA 349
Query: 480 LEKLKHAARKKKMEAML 496
L KLKH R K+++ +
Sbjct: 350 LRKLKHPNRSKRLKDFV 366
>gi|226324578|ref|ZP_03800096.1| hypothetical protein COPCOM_02362 [Coprococcus comes ATCC 27758]
gi|225207026|gb|EEG89380.1| RNA polymerase sigma factor RpoD [Coprococcus comes ATCC 27758]
Length = 371
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M +V
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVDRV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 254 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 306 -VLSTLTEREQKVLRLRFGMSDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 364
Query: 491 KM 492
K+
Sbjct: 365 KL 366
>gi|427392567|ref|ZP_18886572.1| RNA polymerase sigma factor rpoD [Alloiococcus otitis ATCC 51267]
gi|425731247|gb|EKU94066.1| RNA polymerase sigma factor rpoD [Alloiococcus otitis ATCC 51267]
Length = 369
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 173/321 (53%), Gaps = 47/321 (14%)
Query: 183 MISPE--LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR 240
MI+P I + ++ Y+K + +LL E V L+K+I+ G
Sbjct: 88 MIAPPGVKINDPVRMYLKEIGRVDLLDAEEEVALAKRIEEG------------------- 128
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKF
Sbjct: 129 ------------DEIAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKF 176
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+
Sbjct: 177 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPT 236
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ I +++ +KVR+ + + +E SL GE S++ D ++
Sbjct: 237 PEEIGAEMDLPTEKVRD-------ILKISQEPV-SLETPIGEEEDSHLGDFIEDDGALSP 288
Query: 420 VDDWA---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQV 475
D+ A LK E+ K ++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+
Sbjct: 289 SDNAAYELLKGEL-KGVLDTLTDREENVLRLRFGLDDGRQRTLEDVGKVFGVTRERIRQI 347
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL KL+H +R K+++ L
Sbjct: 348 EAKALRKLRHPSRSKQLKDFL 368
>gi|404420807|ref|ZP_11002540.1| RNA polymerase sigma factor SigB [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
gi|403659675|gb|EJZ14305.1| RNA polymerase sigma factor SigB [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
Length = 319
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 101/302 (33%), Positives = 170/302 (56%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLNTKKRLGEN---RKRDLATVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K + + G + + +AE + +K+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGIPVEKI 201
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN---K 431
+ E SLD +P T + +E++ ++ + + ++ +
Sbjct: 202 NDLLEHSRDPVSLD---------MPVGTDEEAPLGDFIEDSEAMSAENAVISELLHTDIR 252
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ+ + KL++ R
Sbjct: 253 HVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLRNGERAD 312
Query: 491 KM 492
++
Sbjct: 313 RL 314
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 144/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 193 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 252
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+ + IAE +
Sbjct: 253 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESME 312
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 313 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 362
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 363 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 421
Query: 484 KHAAR 488
+H R
Sbjct: 422 RHPNR 426
>gi|375094942|ref|ZP_09741207.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
gi|374655675|gb|EHR50508.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
Length = 346
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ H L E L R+ EL +++ +
Sbjct: 53 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTAEDLPRQRRV---ELTALVRDGQR 108
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 109 AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 168
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A ++++KV
Sbjct: 169 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATHEELAAEAGIAEEKV 228
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D + V L+D++ + ++
Sbjct: 229 ASLLDHARDPVSLDMPVGSEEDAPLGD----FIEDAEA-TDAESAVISGLLQDDLRR-VL 282
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+ +IRL YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 283 ATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLRQGERADRLR 342
Query: 494 A 494
A
Sbjct: 343 A 343
>gi|1657704|gb|AAC44535.1| sigma factor MytB [Mycobacterium tuberculosis]
Length = 345
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 164/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 52 YLNGIGKTALLNPAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRDGEA 107
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 108 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 167
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 168 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI--PID 225
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 226 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 277
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 278 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 322
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 323 IERDVMSKLRHGERADRL 340
>gi|358068536|ref|ZP_09154998.1| hypothetical protein HMPREF9333_01879 [Johnsonella ignava ATCC
51276]
gi|356693353|gb|EHI55032.1| hypothetical protein HMPREF9333_01879 [Johnsonella ignava ATCC
51276]
Length = 427
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 191 AKQKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 250
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L + G PSV +A+ L+M+ +KV
Sbjct: 251 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLQLGYEPSVSELAKALDMTDEKV 310
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D ++N P V+ L++ +
Sbjct: 311 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVSPEGNVESVMLREHIET 362
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ + ++RER+RQ+ AL KL++ R K
Sbjct: 363 L-LADLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRNPIRSK 421
Query: 491 KMEAML 496
K+ L
Sbjct: 422 KIRDFL 427
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 176/314 (56%), Gaps = 16/314 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPE 245
+ K + LL E V L+++++ + D + L+E+LG S ++ +
Sbjct: 91 AFFKEMARYPLLKPDEEVELARRVRFLEEVKDLQAALEEQLGHSVSKSEVASKFDLNEKQ 150
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 151 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 210
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 211 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEVEMA 270
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 271 EFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 325
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 326 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 385
Query: 484 KHAARKKKMEAMLV 497
+ K+++ L+
Sbjct: 386 RRPHIAKRLKGWLI 399
>gi|315444860|ref|YP_004077739.1| sigma-70 family RNA polymerase sigma factor [Mycobacterium gilvum
Spyr1]
gi|315263163|gb|ADT99904.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium gilvum
Spyr1]
Length = 319
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 167/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLTAADEVELAKRIEAGLYAQ-HLLATRKRLGEN---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ V+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGI--PVE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IEREVMAKLRNGDRADRL 314
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 151/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 385 ESKAAKMQLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 444
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ +++
Sbjct: 445 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRNLVQELGREPTPEEIADKMDLP 504
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKD 427
+KVR KV + +E SL GE S + D + N P V + LK+
Sbjct: 505 VEKVR-------KVLKIAKEPI-SLETPIGEEEDSSLGDFIEDKNTVSPAEAVISFNLKE 556
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+V + ++ TL RE E+++L +G+D + T E++ K+ ++RER+RQ+ AL KL+H
Sbjct: 557 QV-RSVLHTLSAREAEVLKLRFGIDTDSDHTLEEVGKKFNVTRERIRQIEAKALRKLRHP 615
Query: 487 ARKKKMEAML 496
R K + L
Sbjct: 616 TRSKILRTFL 625
>gi|357413573|ref|YP_004925309.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
flavogriseus ATCC 33331]
gi|320010942|gb|ADW05792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
flavogriseus ATCC 33331]
Length = 358
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ A+ V L+++++ GL + +L S L + +L +++
Sbjct: 62 FRQYLREIGRIPLLSAADEVELARRVEAGL-FAEERLAGTPDPDSGLAV---DLDRLVVM 117
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 118 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 177
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A L+++
Sbjct: 178 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEEVAAQLDLTP 237
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE D + + V+ A L E
Sbjct: 238 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVAFGDLIEDGDAASPVETAAFLLLREH 289
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L+KL+ A
Sbjct: 290 LEVVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLDKLRGHAF 349
Query: 489 KKKMEAML 496
++ L
Sbjct: 350 ADQLRGYL 357
>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|385991992|ref|YP_005910290.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5180]
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]
gi|339299185|gb|AEJ51295.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5180]
Length = 345
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 164/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 52 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRDGEA 107
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 108 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 167
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 168 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI--PID 225
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 226 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 277
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 278 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 322
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 323 IERDVMSKLRHGERADRL 340
>gi|340752448|ref|ZP_08689247.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31]
gi|422316821|ref|ZP_16398197.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum D10]
gi|340567285|gb|EEO37295.2| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31]
gi|404590588|gb|EKA92953.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum D10]
Length = 462
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 224 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 283
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 284 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 343
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 344 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 397
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 398 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 457
Query: 494 AMLV 497
V
Sbjct: 458 DFKV 461
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/308 (33%), Positives = 174/308 (56%), Gaps = 18/308 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSIL 250
+ L+ Y++ + LLT + V+L+++I+ G L+ + RL + P +I+
Sbjct: 93 DTLETYLREMGRVPLLTSEQEVQLAQQIERG-KLEQERARL---------LKVPPEHAIM 142
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
AR++L +N+RLV+SIA++Y G +ADL+Q G GL+ +EKFD ++GFK ST
Sbjct: 143 DSAQNARDRLTEANLRLVVSIARKYMGRGMALADLIQEGNAGLMLAVEKFDYTRGFKFST 202
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ +RT+RLP H HE + L R + +E G PS + IAE +++
Sbjct: 203 YATWWIRQAINRAIANQARTIRLPVHFHEAVNRLHRTSSQLFQELGREPSAEEIAERMHI 262
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEV 429
S V + EA + SL+ S G G++ +++V +P L++++
Sbjct: 263 SVDTVYDILEAGKQPISLE-----SPVGDDGDSSLGDFVEDQVTASPADITTRNILREQI 317
Query: 430 NKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ L ERER II+ ++G LD + T +I + + LSRERVRQ+ AL KL+ +
Sbjct: 318 AH-VLDELNERERHIIQYHFGFLDGKEHTLAEIGENLHLSRERVRQIEAKALRKLRQSYS 376
Query: 489 KKKMEAML 496
++++ L
Sbjct: 377 SRQLKDFL 384
>gi|358467947|ref|ZP_09177606.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. oral taxon 370
str. F0437]
gi|357066209|gb|EHI76365.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. oral taxon 370
str. F0437]
Length = 466
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 228 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 287
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 288 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 347
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 348 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 401
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 402 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 461
Query: 494 AMLV 497
V
Sbjct: 462 DFKV 465
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/323 (32%), Positives = 179/323 (55%), Gaps = 20/323 (6%)
Query: 178 KQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG- 236
K+L+ M +P + ++ Y++ + +LL+ +E V LS+KI+ L L+ + L+ +G
Sbjct: 259 KKLQIMRTP---SDPIRSYLRDIKRTKLLSASEEVALSRKIQDILKLEKIRAELQRDIGR 315
Query: 237 --------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 288
++ + + L+ + E A++KLV SN+RLV+SI + Y G + DL+Q
Sbjct: 316 EPTLSEWSQAVSLDQTSLELRVKEGRSAKDKLVNSNLRLVVSIVKNYQGRGMTLPDLIQE 375
Query: 289 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK 348
G +GL+RG EKFD G+K STY WWIRQ V+RA+ + SR +RLP H++E + I AK
Sbjct: 376 GSLGLIRGAEKFDPEMGYKFSTYATWWIRQAVTRAIADQSRIIRLPVHIYEVISRINKAK 435
Query: 349 LRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 407
+ + +E G P + +A + MS +K+ ++ S+DR G GE +
Sbjct: 436 MTISQELGRQPRDEEVAAMVGMSVEKLLFIVKSARPPTSMDRPI-----GKDGEQSLGEM 490
Query: 408 ADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIG 466
++ +P + LK ++ ++ +L ERE++RL +GL + +T +D+
Sbjct: 491 VADKGVGSPEDDIMTQVLKQDIED-VLRSLNPMEREVLRLRFGLSGAQSMTLKDLGIIFK 549
Query: 467 LSRERVRQVGLVALEKLKHAARK 489
++RER+RQ+ AL KL+H + K
Sbjct: 550 VTRERIRQIEAKALRKLRHPSWK 572
>gi|154498377|ref|ZP_02036755.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC
29799]
gi|150272688|gb|EDM99866.1| RNA polymerase sigma factor RpoD [Pseudoflavonifractor capillosus
ATCC 29799]
Length = 441
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 179/321 (55%), Gaps = 25/321 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR----ISRP 244
I + ++ Y+K + LL E V+L++ + G D K R+ E + R + P
Sbjct: 132 IDDPVRMYLKEIGKVNLLNPDEEVQLAQDMGAG---DAAKARMAEIEAAEKRGEPIVLTP 188
Query: 245 E----LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
E L+ + A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKF
Sbjct: 189 EEEKALKKDIRRGEAAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKF 248
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +IR ++ L+E G PS
Sbjct: 249 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGHDPS 308
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNP 416
+ IAE +NM KVR ++ + +E SL GE S++ D + + P
Sbjct: 309 PEEIAEEMNMPVDKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDEDASEP 360
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
LK+++ ++ TL RE ++++L +G+ D T E++ K ++RER+RQ+
Sbjct: 361 SEAASFTLLKEQLVD-VLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQI 419
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL KL+H +R KK++ L
Sbjct: 420 EAKALRKLRHPSRSKKLKDFL 440
>gi|139436983|ref|ZP_01771143.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC
25986]
gi|133776630|gb|EBA40450.1| RNA polymerase sigma factor RpoD [Collinsella aerofaciens ATCC
25986]
Length = 454
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 181/314 (57%), Gaps = 22/314 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT +E V L+ KI+ GL + +L+ L ++R E++
Sbjct: 148 LTGDPVRMYLKEIGKVDLLTASEEVDLAMKIEAGLEATE---KLEAADAGELELTRAEIR 204
Query: 248 SI--LMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
+ + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD K
Sbjct: 205 RLTRIENVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYQK 264
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I
Sbjct: 265 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEI 324
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
++MS +VR ++ + +E SL GE S + D +E++ P
Sbjct: 325 GAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSQAIVPPDA 375
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
L++++ + ++ +L +RER++I L +GL D T E++ + G++RER+RQ+
Sbjct: 376 ASFSMLQEQLTQ-VLDSLADRERKVIELRFGLVDGHPRTLEEVGREFGVTRERIRQIESK 434
Query: 479 ALEKLKHAARKKKM 492
L KL+H +R K+
Sbjct: 435 TLAKLRHPSRSSKL 448
>gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205]
Length = 470
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/245 (40%), Positives = 143/245 (58%), Gaps = 17/245 (6%)
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K S
Sbjct: 228 LMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFS 287
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+ + IAE +
Sbjct: 288 TYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPTEEEIAESME 347
Query: 369 MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NNPWHGVDDWA 424
M+ +K+R F P SL G+ S + D +E NP V
Sbjct: 348 MTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIENPEQDVAKNL 397
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 398 LREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKL 456
Query: 484 KHAAR 488
+H R
Sbjct: 457 RHPNR 461
>gi|404483026|ref|ZP_11018251.1| RNA polymerase sigma factor RpoD [Clostridiales bacterium OBRC5-5]
gi|404344116|gb|EJZ70475.1| RNA polymerase sigma factor RpoD [Clostridiales bacterium OBRC5-5]
Length = 410
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 344
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 491 KMEAML 496
++ L
Sbjct: 404 RIRDFL 409
>gi|209523577|ref|ZP_03272131.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|376004385|ref|ZP_09782099.1| RNA polymerase sigma factor rpoD [Arthrospira sp. PCC 8005]
gi|209495982|gb|EDZ96283.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|375327277|emb|CCE17852.1| RNA polymerase sigma factor rpoD [Arthrospira sp. PCC 8005]
Length = 387
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E+L
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREKLIEHYHREPNEKEWA 131
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++ + PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 132 NAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 191
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 192 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 251
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 252 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 301
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 302 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 360
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 361 RIRQIEAKALRKLRHPNR 378
>gi|383819225|ref|ZP_09974501.1| RNA polymerase sigma factor SigB [Mycobacterium phlei RIVM601174]
gi|383337196|gb|EID15577.1| RNA polymerase sigma factor SigB [Mycobacterium phlei RIVM601174]
Length = 319
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 110/320 (34%), Positives = 166/320 (51%), Gaps = 50/320 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + + EL ++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLETRKRLGEN---RKRELAEVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H++LG + E G+ V+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQQLGREATDEELAAESGI--PVE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V N EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGNDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ + KL++ R ++ A
Sbjct: 297 IEREVMAKLRNGERADRLRA 316
>gi|449064777|ref|YP_007431860.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Korea 1168P]
gi|449033285|gb|AGE68712.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Korea 1168P]
Length = 338
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 164/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 45 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRDGEA 100
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 101 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 160
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 161 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI--PID 218
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 219 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 270
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 271 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 315
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 316 IERDVMSKLRHGERADRL 333
>gi|39998179|ref|NP_954130.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens PCA]
gi|409913534|ref|YP_006891999.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens
KN400]
gi|39985125|gb|AAR36480.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens PCA]
gi|298507117|gb|ADI85840.1| RNA polymerase sigma-70 factor RpoD [Geobacter sulfurreducens
KN400]
Length = 577
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 97/269 (36%), Positives = 161/269 (59%), Gaps = 22/269 (8%)
Query: 235 LGSSLR-ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
L +LR I R E +S LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL
Sbjct: 323 LSDALRAIDRGEAKS-----KLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGL 377
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLE 352
++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++
Sbjct: 378 MKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQ 437
Query: 353 EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
E G PS + IAE +N+ KVR KV + +E SL GE S++ D +
Sbjct: 438 EIGREPSPEEIAERMNLPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-I 488
Query: 413 EN----NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 467
E+ +P V L ++ + ++ TL RE +++R+ +G+ +K T E++ + +
Sbjct: 489 EDKGVVSPLEAVIKANLSEQTAR-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEV 547
Query: 468 SRERVRQVGLVALEKLKHAARKKKMEAML 496
+RER+RQ+ AL KL+H +R KK+ + +
Sbjct: 548 TRERIRQIEAKALRKLRHPSRAKKLRSFV 576
>gi|365862000|ref|ZP_09401757.1| putative RNA polymerase principal sigma factor [Streptomyces sp.
W007]
gi|364008482|gb|EHM29465.1| putative RNA polymerase principal sigma factor [Streptomyces sp.
W007]
Length = 363
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 177/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + +L L S L +L +++
Sbjct: 67 FRQYLREIGRITLLTAAEEVELARRVEAGL-FAEERLAGTPDLDSRLA---GDLDRLVVM 122
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 123 GRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 182
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + IA L+++
Sbjct: 183 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEEIAVELDLTP 242
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE D + + V+ A L E
Sbjct: 243 ERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLREH 294
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L +L+ A
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 489 KKKMEAML 496
++ L
Sbjct: 355 ADQLRGYL 362
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 113/317 (35%), Positives = 172/317 (54%), Gaps = 38/317 (11%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V LSK+I+ GL H L K+RLG + + +L++I+ E
Sbjct: 29 YLNGIGKTALLNAEDEVELSKRIEAGLYAK-HLLETKKRLGPA---KKADLKTIVAEGEA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG + EE G+
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATLEELAEESGI--PAH 202
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 421
+I E L+ S+ V ++ D EA P + + E + A+N V +N H
Sbjct: 203 KIEELLDHSRDPV-----SLDMPVGADEEA-PLGDFI--EDAEATSAENTVVSNVMHS-- 252
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
+V + ++ TL ERE+++I L +GLD + T + I KR GLSRERVRQ+ +
Sbjct: 253 ------DV-RAVLATLEEREQQVITLRFGLDDGQPRTLDQIGKRFGLSRERVRQIEREVM 305
Query: 481 EKLKHAARKKKMEAMLV 497
KL+ R K+ + +
Sbjct: 306 AKLREGRRADKLRSYAI 322
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 177/320 (55%), Gaps = 14/320 (4%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRI 241
SM+ + ++ Y+K + LL+ E + L++ + G + L+E
Sbjct: 135 SMVDSFGTDDPVRMYLKEIGKVNLLSSDEEIELAQAMGAGAEAKEQLAELQESGEEIPAE 194
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
EL + A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 195 VLAELNKAIKRGERAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFD 254
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 360
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +IR ++ L+E G PS
Sbjct: 255 YTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGHDPSP 314
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPW 417
+ IAE ++M ++VR ++ + +E SL GE S++ D + + P
Sbjct: 315 EEIAEEMSMPVERVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDEDASEPA 366
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
LK+++ + ++ TL RE ++++L +G+ D T E++ K ++RER+RQ+
Sbjct: 367 EAASFTLLKEQLVE-VLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIE 425
Query: 477 LVALEKLKHAARKKKMEAML 496
AL KL+H +R KK++ L
Sbjct: 426 AKALRKLRHPSRSKKLKDFL 445
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + R +L++++ +
Sbjct: 36 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RRRDLEAVVRDGQA 91
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 92 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 151
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ V+
Sbjct: 152 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PVE 209
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 210 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 261
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 262 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 306
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 307 IERDVMSKLRHGERADRL 324
>gi|443315526|ref|ZP_21045012.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442784874|gb|ELR94728.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 372
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 173/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ +L E L ++
Sbjct: 61 EDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERVYDQLAETLQRDPQDAEWAEAVD 120
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P+ Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 121 MPLPKFQRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 180
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 181 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 240
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 241 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 290
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 291 PEDEVSKSLLREDLES-VLGTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 349
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 350 IEAKALRKLRHPNR 363
>gi|427718372|ref|YP_007066366.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 7507]
gi|427350808|gb|AFY33532.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 7507]
Length = 416
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 97/274 (35%), Positives = 161/274 (58%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRL---KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+ L D K L K R +++ EL+ I + A+E ++ +N+RLV+S+A++Y N
Sbjct: 139 GIVLSDLKPTLANGKRRWAEIAKLTVEELEQIQTQGLQAKEHMIKANLRLVVSVAKKYQN 198
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 199 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 258
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR + + SL+ + +
Sbjct: 259 TEKLNKIKKAQRKIAQEKGRTPTLEDLAVELEMTPTQVREVLLRVPRSVSLETKVGKDKD 318
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L+ ++ L + L RER++I + +GL D
Sbjct: 319 TELGELLETDCV------TPEEMLMRESLQRDLQHL-LADLTSRERDVILMRFGLADGHP 371
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 372 YSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>gi|423065852|ref|ZP_17054642.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|406712610|gb|EKD07794.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 372
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E+L
Sbjct: 61 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREKLIEHYHREPNEKEWA 116
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++ + PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 117 NAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 176
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 177 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 236
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 237 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 286
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 287 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 345
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 346 RIRQIEAKALRKLRHPNR 363
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 174/314 (55%), Gaps = 30/314 (9%)
Query: 204 ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR-----ISRPELQSILMECSLA-- 256
E +H V ++ + G DD L ++ S+R I R L S E +LA
Sbjct: 69 EPTSHQLSVESQREAEVGTVEDDTALSSNTKINDSVRMYLKEIGRVPLLSADEEVALALR 128
Query: 257 --------REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 129 IQEGDTEAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKTVEKFDHTKGFKF 188
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +
Sbjct: 189 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGREPTPEEIGAEM 248
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D ++N D A
Sbjct: 249 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDDNATSPADHTAYAL 300
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK--ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++++ ++ L +RE ++RL +GLDK E T E + + G++RER+RQ+ AL K
Sbjct: 301 LKEQLDE-VLEQLTDREENVLRLRFGLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRK 359
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ L
Sbjct: 360 LRHPSRSKQLKDFL 373
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 85/237 (35%), Positives = 150/237 (63%), Gaps = 8/237 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L++SN+RLV+S+A+RY G DL+Q G +GL++ +EKFD SKG+K STY WW
Sbjct: 130 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 189
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + I+ K ++E G PS++ IAE + K+
Sbjct: 190 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYVQEHGEEPSIEYIAEQVGKPVDKI 249
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+A + SL+ +N + +IAD + +P +++E++KL +
Sbjct: 250 EEILQAAPETLSLE----TPVNEEDDSSMGDFIADESI-GSPKKEAIRTLMREEIDKL-L 303
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
TL +RE++++++ YGL + + +T E++ + G++RER+RQ+ + AL KL+H +R +
Sbjct: 304 ETLNDREKKVLKMRYGLYNGKPMTLEEVGQFFGVTRERIRQIEVKALRKLRHPSRSR 360
>gi|428769135|ref|YP_007160925.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium aponinum
PCC 10605]
gi|428683414|gb|AFZ52881.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium aponinum
PCC 10605]
Length = 399
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 99/299 (33%), Positives = 175/299 (58%), Gaps = 21/299 (7%)
Query: 208 HAEVVRLSKKIKTGLSLDDHKLRL-----KERLGSSLRISRPELQSILMECSLAREKLVM 262
H+E V++ K I L+L K+ KE + ++ EL++IL A++K++
Sbjct: 108 HSEAVKIGK-IAQQLNLTPKKVESIITEGKETWANLAQVKLSELETILANGIKAKQKMIN 166
Query: 263 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 322
+N+RLV+SIA++Y N G ++ DL+Q G +GL + +EKFD +KG+ STY YWWIRQG++R
Sbjct: 167 ANLRLVVSIAKKYQNRGLELLDLIQEGTLGLEKAVEKFDHTKGYHFSTYAYWWIRQGMTR 226
Query: 323 ALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAI 381
A+ +RT+RLP H+ ERL ++ + +L +K G +VD IA+ ++M+ +R I
Sbjct: 227 AIATQARTIRLPIHITERLNQLKKVQRQLSQKLGRIATVDEIAKEMDMTSLDLRQFLNQI 286
Query: 382 GKVFSLDREAFPSLNGLPGETHHSYIADNRVEN---NPWHGVDDWALKDEVNKLIIVTLG 438
+ SL+ + GE +++ + + +E P + +++ ++ ++ + L
Sbjct: 287 PRSISLEMKV--------GEDYNTELVE-LIETESATPEENLMRVSMQKDLRSMLSL-LN 336
Query: 439 EREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
ERE++I+RL YG + + + D + + LSRERVRQ+ A++KL+ +KK + L
Sbjct: 337 EREQKILRLRYGFENGKIYSLSDTASIMNLSRERVRQIQAKAIQKLRQPNQKKSLRDYL 395
>gi|393201582|ref|YP_006463424.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris
StLB046]
gi|406664445|ref|ZP_11072220.1| Sigma-A [Bacillus isronensis B3W22]
gi|327440913|dbj|BAK17278.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris
StLB046]
gi|405387293|gb|EKB46717.1| Sigma-A [Bacillus isronensis B3W22]
Length = 375
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 490 KKMEAML 496
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|409993807|ref|ZP_11276936.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str.
Paraca]
gi|291570496|dbj|BAI92768.1| principal RNA polymerase sigma factor SigA [Arthrospira platensis
NIES-39]
gi|409935351|gb|EKN76886.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str.
Paraca]
Length = 387
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E+L
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREKLIEHYHREPNEKEWA 131
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++ + PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 132 NAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 191
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 192 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 251
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 252 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 301
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 302 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 360
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 361 RIRQIEAKALRKLRHPNR 378
>gi|146295919|ref|YP_001179690.1| RpoD family RNA polymerase sigma-70 subunit [Caldicellulosiruptor
saccharolyticus DSM 8903]
gi|145409495|gb|ABP66499.1| RNA polymerase, sigma 70 subunit, RpoD family [Caldicellulosiruptor
saccharolyticus DSM 8903]
Length = 411
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K STY WW
Sbjct: 174 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 233
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +NM +KV
Sbjct: 234 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 293
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D +++ P LK+++ +
Sbjct: 294 R-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLE 345
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 346 -VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 404
Query: 491 KMEAML 496
K++ L
Sbjct: 405 KLKDFL 410
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 104/313 (33%), Positives = 163/313 (52%), Gaps = 42/313 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + +K Y+K + LLT E + L+ KI+ G
Sbjct: 88 IDDPVKVYLKEIGRVPLLTPEEEIDLALKIQAGGP------------------------- 122
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
E A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 123 ---EGEKAKQRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDHTKGFKF 179
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + ++ + L E G PS + IAE L
Sbjct: 180 STYATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSQLLHEYGHDPSAEEIAERL 239
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
+MS KVR + SL+ GE S++ D +++ P
Sbjct: 240 DMSVDKVREIMRVAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPVPAEAASQTL 291
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL RE +++RL +GL D T E++ K ++RER+RQ+ AL KL
Sbjct: 292 LKEQLAD-VLKTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFNVTRERIRQIEAKALRKL 350
Query: 484 KHAARKKKMEAML 496
+H +R KK+ L
Sbjct: 351 RHPSRSKKLRDFL 363
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 93 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 152
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +NMS ++V
Sbjct: 153 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 212
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 213 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 264
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 265 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 323
Query: 491 KMEAML 496
K++ L
Sbjct: 324 KLKDYL 329
>gi|167758408|ref|ZP_02430535.1| hypothetical protein CLOSCI_00748 [Clostridium scindens ATCC 35704]
gi|336422453|ref|ZP_08602597.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
5_1_57FAA]
gi|167664305|gb|EDS08435.1| RNA polymerase sigma factor RpoD [Clostridium scindens ATCC 35704]
gi|336008379|gb|EGN38397.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
5_1_57FAA]
Length = 371
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAQLDMPVERV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 254 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 306 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 364
Query: 491 KM 492
K+
Sbjct: 365 KL 366
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K STY WW
Sbjct: 180 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ + IA+ +NM +KV
Sbjct: 240 IRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEEIAKEMNMPVEKV 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D +++ P LK+++ +
Sbjct: 300 R-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSMLKEQLLE 351
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ +L ERE+++++L +GL D T E++ + ++RER+RQ+ AL KL+H +R K
Sbjct: 352 -VLDSLNEREKKVLKLRFGLEDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSK 410
Query: 491 KMEAML 496
K++ L
Sbjct: 411 KLKDFL 416
>gi|309791990|ref|ZP_07686468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308225984|gb|EFO79734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 396
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 114/308 (37%), Positives = 173/308 (56%), Gaps = 21/308 (6%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR 243
+S L+ + ++ Y++ + LLT + RL++ I+ G K ++K +
Sbjct: 90 LSDALLGDSVRLYLREIGQVPLLTAEQEKRLAQTIERG-----QKAQVKIKDLDPTSAEA 144
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ + + + AR+++ +N+RLV+SIA+RY + G + DL+Q G +GLLR IEKFD
Sbjct: 145 VELRRQIEKGNDARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDHD 204
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KGFK STY WWI+Q +SRAL + SR +RLP HL E L I+ A+ +L ++ G P
Sbjct: 205 KGFKFSTYATWWIKQALSRALADQSRLVRLPVHLGETLNRIQAARRQLTQRLGREPYDSE 264
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L+MSQ+K+R SL A P GE S +AD +P D
Sbjct: 265 LADELSMSQEKLRELRRTAQDPVSL---ATPV-----GEEADSTLAD--FIPDPHALDAD 314
Query: 423 WALKDEVNKLIIVT----LGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
A + + I T L ERER+++ L YGL D + T E++ K G++RERVRQ+ +
Sbjct: 315 DAAASGMLRQQIATALDQLTERERKVLELRYGLTDGQPRTLEEVGKAFGVTRERVRQIEV 374
Query: 478 VALEKLKH 485
AL KL+H
Sbjct: 375 KALRKLRH 382
>gi|334118497|ref|ZP_08492586.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
gi|333459504|gb|EGK88117.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
Length = 388
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 132/410 (32%), Positives = 210/410 (51%), Gaps = 64/410 (15%)
Query: 98 EEESSELDYSVEALLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSARQRR 157
E E+ EL S E++L +S LE + +R DS S++ P + G AR RR
Sbjct: 15 EMETIELLRSAESVL--PESELELFIDEDDDREEFLDSQSEED----PKSGKGAKAR-RR 67
Query: 158 LNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKK 217
+KKK +++ ++ Y++ + LL E + L++K
Sbjct: 68 AQAKKKHYTEDS-----------------------IRLYLQEIGRIRLLRADEEIELARK 104
Query: 218 IKTGLSLDDHKLRLKERL-------------GSSLRISRPELQSILMECSLAREKLVMSN 264
I L L+ R++E+L +++ ++ P + L A+EK+V SN
Sbjct: 105 IADLLELE----RVREQLLEEYNREPKDSEWANAVDMALPAFRHRLHVGRRAKEKMVQSN 160
Query: 265 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 324
+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+
Sbjct: 161 LRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAI 220
Query: 325 VENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 383
+ SRT+RLP HL+E + I + KL +E G P+ + IA + M+ +K+R
Sbjct: 221 ADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLR-------- 272
Query: 384 VFSLDREAFP-SLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGE 439
F P SL G+ S + D +E++ P V L++++ ++ TL
Sbjct: 273 -FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGETPEDQVSKNLLREDLES-VLDTLSP 329
Query: 440 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 330 RERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 379
>gi|428301225|ref|YP_007139531.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428237769|gb|AFZ03559.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 318
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 177/314 (56%), Gaps = 26/314 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR--------P 244
++ Y++ + LL+H E ++ K+++ + L++ + L +LG + P
Sbjct: 11 VRTYLREIGKVPLLSHEEEIKFGKQVQRAVVLNEVRESLALKLGHEPTLEEWAIASELEP 70
Query: 245 -ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 LELNQAIADADEAKRRMVEANLRLVVSVAKKYLKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSAGE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 420
+A+ L+++ +VR E SLD G+ H + + + + +P V
Sbjct: 191 LAKELDLTPAQVREYLEKARLPLSLDLRL--------GDNHDTELGEMLEDTGASPEEFV 242
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
+L +++ +L + L ++RE+I + +GL D + +T I + + +SRERVRQ+ A
Sbjct: 243 MQSSLSNDLERL-MANLTPQQREVISMRFGLKDGQSMTLARIGEILNISRERVRQIEREA 301
Query: 480 LEKLKHAARKKKME 493
L KL RK K+E
Sbjct: 302 LTKL----RKSKVE 311
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/327 (33%), Positives = 182/327 (55%), Gaps = 18/327 (5%)
Query: 183 MISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----- 236
+++ E+ N Y++ S +LLT E LS I+ L L+ + L ER G
Sbjct: 249 LVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERCGRQPTF 308
Query: 237 ----SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
S+ + + L+ + +L ++K++ SN+RLV+SIA+ Y G ++ DLVQ G G
Sbjct: 309 AQWASAAGVDQKSLRKRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRG 368
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL- 351
L+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E ++ A+ +L
Sbjct: 369 LVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLY 428
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
E G P + IAE +S K++ + SLD++ + N P E IAD
Sbjct: 429 SETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPSEV----IADPE 484
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 470
+ + ++ ++ +++K ++ +LG RE+++IR +G+ D T ++I + +G+SRE
Sbjct: 485 AVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRE 542
Query: 471 RVRQVGLVALEKLKHAARKKKMEAMLV 497
RVRQ+ A KLK+ R ++ LV
Sbjct: 543 RVRQIESSAFRKLKNKKRSNHLQQYLV 569
>gi|428320499|ref|YP_007118381.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
gi|428244179|gb|AFZ09965.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
Length = 388
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E+L
Sbjct: 77 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RVREQLLEEYNREPKDSEWA 132
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++ ++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 133 NAVEMALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 192
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 193 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 252
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 253 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 302
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 303 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 361
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 362 RIRQIEAKALRKLRHPNR 379
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 91/240 (37%), Positives = 146/240 (60%), Gaps = 14/240 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++ ++ SN+RLV+SIA++Y N G DL+Q G IGL++ ++K+D KG+K STY WW
Sbjct: 338 AKQVMIQSNLRLVVSIAKKYVNRGLHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWW 397
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + +I+ +K +E G P+ + IAEYL++ +KV
Sbjct: 398 IRQAITRAIADQARTIRIPVHMIETINKIIKASKKLFQENGREPTPEEIAEYLDIPVEKV 457
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ KV +E SL G+ +++ D ++ NP V L++++ K
Sbjct: 458 K-------KVMKFSQEPI-SLETPIGDDDDTFLKDFIEDKSIPNPEEQVTRKLLREQLQK 509
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL E+EREI+ YGL D T E + K ++RER+RQ+ AL KL+H AR K
Sbjct: 510 -VLSTLSEKEREILMYRYGLVDGTEYTLEQVGKMFNVTRERIRQIENKALRKLRHPARAK 568
>gi|375088649|ref|ZP_09734987.1| RNA polymerase sigma factor rpoD [Dolosigranulum pigrum ATCC 51524]
gi|374561614|gb|EHR32953.1| RNA polymerase sigma factor rpoD [Dolosigranulum pigrum ATCC 51524]
Length = 370
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 150/247 (60%), Gaps = 14/247 (5%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY W
Sbjct: 132 LAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYQKGFKFSTYATW 191
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +++ +K
Sbjct: 192 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEK 251
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVN 430
VRN + + +E SL GE S++ D +++ D+ A LK+E+
Sbjct: 252 VRN-------ILKVSQEPV-SLETPIGEEDDSHLGDFIEDDHALSPSDNAAYELLKNEL- 302
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL +RE ++RL +GLD T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 303 KDVLDTLTDREENVLRLRFGLDDGRQRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRS 362
Query: 490 KKMEAML 496
K+++ L
Sbjct: 363 KQLKDFL 369
>gi|355576273|ref|ZP_09045605.1| hypothetical protein HMPREF1008_01582 [Olsenella sp. oral taxon 809
str. F0356]
gi|354816925|gb|EHF01437.1| hypothetical protein HMPREF1008_01582 [Olsenella sp. oral taxon 809
str. F0356]
Length = 461
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 182/314 (57%), Gaps = 22/314 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT +E V L+ KI+ G + +L+ + ++R E++
Sbjct: 155 LTGDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGT---EASQKLEAADNGEIELTRAEMR 211
Query: 248 SILM--ECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
++ + L A++ L+ +N+RL +SIA+RY G DL+Q G +GL+R +EKFD +K
Sbjct: 212 RLMRIEQVGLEAKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTK 271
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I
Sbjct: 272 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEEI 331
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 419
E + ++ +VR ++ + +E SL GE S + D +E++ P
Sbjct: 332 GEEMGITADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSSAVAPPEA 382
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
D L++++ + ++ +L +RER++I+ +GL D T E++ + G++RER+RQ+
Sbjct: 383 ASDSMLREQLEQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESK 441
Query: 479 ALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 442 TLAKLRHPSRSGRL 455
>gi|374990114|ref|YP_004965609.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
gi|297160766|gb|ADI10478.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
Length = 453
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 177/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ AE V L+++++ GL + KL L + L + +++
Sbjct: 157 FRQYLREIGRIPLLSAAEEVELARRVEAGL-FAEEKLSNTPDLDTQLA---HDFDQLVVL 212
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 213 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 272
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ + +A +L++
Sbjct: 273 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAHHLDLLP 332
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 333 ERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 384
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 385 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 444
Query: 489 KKKMEAML 496
++ L
Sbjct: 445 ADQLRGYL 452
>gi|357458317|ref|XP_003599439.1| RNA polymerase sigma factor [Medicago truncatula]
gi|355488487|gb|AES69690.1| RNA polymerase sigma factor [Medicago truncatula]
Length = 403
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 116/315 (36%), Positives = 170/315 (53%), Gaps = 16/315 (5%)
Query: 180 LRSMISPELIQNRL--KGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS 237
L M+ E IQN + V G V+ L+ + L +K G ++ K R+ E+ G+
Sbjct: 84 LGCMVEEENIQNNFLRQKVVVGSVTSGFLSSTDEAELCLCLKEGAKIEVAKQRMTEQEGN 143
Query: 238 SLRISRPELQS-----ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
S ISR L++ +L+ ++E+L LV SIA Y G + DL+Q G IG
Sbjct: 144 S-AISRFTLENTSVDKVLINTRKSKERLARDYRGLVASIAAHYQGKGLSIQDLIQEGTIG 202
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRL 351
LL G EKFD ++G K+STYVYWWI+QG+ +AL + SR +RLP + + I A +
Sbjct: 203 LLHGAEKFDPNRGCKLSTYVYWWIKQGIIKALAKKSRLIRLPGEKYGMVAKIAEANNVLR 262
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
P+ + IAE LN++ V+ +E + SLDR N + E I
Sbjct: 263 RRLRRKPTYNEIAEVLNVNVSTVKLVSERSRQPISLDRSITDQSNLILKE-----IIPGP 317
Query: 412 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRE 470
VE P V+ +K V KL + TL +RE EI+RLY+GL+ E L++E+I K + LSRE
Sbjct: 318 VEMIPEKMVERQLMKQGVVKL-LNTLDKREEEIVRLYFGLNGETPLSFEEIGKLLKLSRE 376
Query: 471 RVRQVGLVALEKLKH 485
R+RQ+ +AL KL+
Sbjct: 377 RIRQIHGIALSKLEQ 391
>gi|404495252|ref|YP_006719358.1| RNA polymerase sigma-70 factor RpoD [Geobacter metallireducens
GS-15]
gi|418065719|ref|ZP_12703090.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter
metallireducens RCH3]
gi|78192871|gb|ABB30638.1| RNA polymerase sigma-70 factor RpoD [Geobacter metallireducens
GS-15]
gi|373561799|gb|EHP88025.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter
metallireducens RCH3]
Length = 579
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/250 (36%), Positives = 154/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 339 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 398
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +N+
Sbjct: 399 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPL 458
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 459 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 509
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 510 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 568
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 569 SRAKKLKSFV 578
>gi|339444818|ref|YP_004710822.1| hypothetical protein EGYY_12580 [Eggerthella sp. YY7918]
gi|338904570|dbj|BAK44421.1| hypothetical protein EGYY_12580 [Eggerthella sp. YY7918]
Length = 419
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 108/322 (33%), Positives = 182/322 (56%), Gaps = 30/322 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL-------DDHKLRLKERLGSSLR 240
L + ++ Y+K + LLT AE + L+ KI+ G++ +D + L+ R R
Sbjct: 113 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATEELEKAEDEGIELERR--EKRR 170
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ R E I A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 171 LGRIEQVGID-----AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 225
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS
Sbjct: 226 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPS 285
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---- 415
+ I + + + ++VR ++ + +E SL GE S + D +E++
Sbjct: 286 PEEIGKEMGLPAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAAVV 336
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
P L+++++K ++ L ERER++I L +GL D T E++ + G++RER+RQ
Sbjct: 337 PPDAASFSMLQEQLSK-VLDGLAERERKVIALRFGLEDGHPRTLEEVGREFGVTRERIRQ 395
Query: 475 VGLVALEKLKHAARKKKMEAML 496
+ L KL+H +R K++ L
Sbjct: 396 IESKTLAKLRHPSRSSKLKDYL 417
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 103/310 (33%), Positives = 170/310 (54%), Gaps = 13/310 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y++ + LLT E + L+++++ G + RL++ G R +L
Sbjct: 102 VDDPVRVYLREIGRVNLLTAQEEIMLAQQVERGEQASE---RLQK--GDYAPSERLQLHR 156
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+ E ARE+L+ +N+RLV+SIA++Y G + DL+Q G IGL+R EKFD KG+K
Sbjct: 157 WVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKGYKF 216
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYL 367
STY WWIRQ ++R + + SRT+RLP H+ E + + A R+++ G P+ D IA L
Sbjct: 217 STYATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRASNRIQQTTGRDPTPDEIALEL 276
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD 427
+ +KVR EA + SL+ + G G+T + ++ P L++
Sbjct: 277 GIPVEKVRRVLEAARQTISLE-----TPIGTEGDTVLADFIEDGKGVTPMDSASHHILRE 331
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+++ + L ERER II+L YGL D T E++ + G++RER+RQ+ L KL+H
Sbjct: 332 QIDS-ALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHP 390
Query: 487 ARKKKMEAML 496
+ + L
Sbjct: 391 HYGRGLRGYL 400
>gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 344
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 106/328 (32%), Positives = 172/328 (52%), Gaps = 25/328 (7%)
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
SKQL + S L + ++ Y+K + S LL + V L+K+I+ + L+ + L E G
Sbjct: 2 SKQL-TRTSKRLATDSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLVEETG 60
Query: 237 SSLRISRPE-----------LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 285
++ + L L + A+ +++ +N+RLV+SIA++Y N DL
Sbjct: 61 PGAEVTDYQWASAAGLNVQALHQRLRDGKSAKNEMIQANLRLVVSIAKKYANSNMSFQDL 120
Query: 286 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIR 345
+Q G +GL+RG EKFD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + I
Sbjct: 121 IQEGCVGLIRGAEKFDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRIS 180
Query: 346 NAKLRLE-EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 404
+ + G P+ + IA ++MS +K+ +A SL + + G+
Sbjct: 181 KMEQKFALHNGRNPTTEEIAAEMDMSAEKITQIKKAAQAPVSLAQT-------MGGDNKG 233
Query: 405 SYIADNRVE---NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWED 460
+ D V+ P LK+++ ++ TL RER+++RL YGLD T E+
Sbjct: 234 RTVEDTLVDVTAEGPEKVSGKSLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEE 292
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAAR 488
I ++RER+RQ+ AL KLK +R
Sbjct: 293 IGTVFSVTRERIRQIEAKALRKLKQPSR 320
>gi|443325471|ref|ZP_21054165.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442794934|gb|ELS04327.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 380
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 112/318 (35%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL--RISRPEL- 246
++ ++ Y++ + LL E + L++KI L L+ R++ER+ L IS E
Sbjct: 69 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELE----RIRERIEDELDREISDAEWG 124
Query: 247 QSILMEC----------SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+ + ME A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 125 KEVDMELRPFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 184
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G
Sbjct: 185 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMG 244
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 245 RKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEA 294
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 295 DGETPEDQVSKSLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 353
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 354 RIRQIEAKALRKLRHPNR 371
>gi|427416876|ref|ZP_18907059.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425759589|gb|EKV00442.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 328
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 104/315 (33%), Positives = 179/315 (56%), Gaps = 29/315 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRI 241
+ ++ Y++ + LLTH E + L K+++ ++L + K +L E LG + I
Sbjct: 18 DTVRTYLQEIGRVPLLTHEEEIVLGKQVQCLMALQETKDKLDEELGHDANRVEWSQAAGI 77
Query: 242 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
S EL L A+ K++ +N+RLV+++A++Y + DL+Q G +GL RG+EKFD
Sbjct: 78 SETELVHQLRHGERAKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLERGVEKFD 137
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
KG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L I+ + L +K G +PSV
Sbjct: 138 PMKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKREQRVLAQKLGRSPSV 197
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNP 416
I + L+++ ++VR + ++ R+ SL+ G+ + + D+ V +P
Sbjct: 198 GEIGQELDLTPEQVR-------EYLTMSRQPI-SLDVRIGDNQDTELQELLEDDTV--SP 247
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+L+ ++ + + L +++E+I L +GL D L+ + +R+G+SRERVRQ+
Sbjct: 248 EDYTVQQSLRQDIRNM-LTELTPQQKEVINLRFGLIDGTQLSLAKVGQRMGISRERVRQL 306
Query: 476 GLVALEKLKHAARKK 490
A LKH R+K
Sbjct: 307 EQQA---LKHLRRRK 318
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 175/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS-------SLRIS 242
++ ++ Y++ + LL E + L++KI L L++ + +E G ++ +
Sbjct: 90 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELADQYEEDHGKYPDNREWAVLVD 149
Query: 243 RP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 150 MPPIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 209
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 210 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 269
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 415
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 270 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 319
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 320 PDQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 378
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 379 IEAKALLKLRHPNR 392
>gi|381162257|ref|ZP_09871487.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
gi|379254162|gb|EHY88088.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
Length = 343
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ G+ H L + L R R EL I+ +
Sbjct: 50 YLNGIGKTALLTAAQEVDLAKRIEAGV-FARHMLDTSDDLS---RERRAELAMIVRDGEQ 105
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 106 AKTHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 165
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A +++ KV
Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAAESGIAESKV 225
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L D++ + ++
Sbjct: 226 ASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLLSDDLRR-VL 279
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+H R ++
Sbjct: 280 ATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMSKLRHGERADRLR 339
Query: 494 A 494
A
Sbjct: 340 A 340
>gi|299535819|ref|ZP_07049140.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1]
gi|424735380|ref|ZP_18163844.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZB2]
gi|298729019|gb|EFI69573.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1]
gi|422950582|gb|EKU44950.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZB2]
Length = 375
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 490 KKMEAML 496
K+++ L
Sbjct: 368 KRLKDFL 374
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 93 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 152
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 153 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 212
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 213 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 266
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 267 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 326
Query: 494 AMLV 497
V
Sbjct: 327 DFKV 330
>gi|427709818|ref|YP_007052195.1| RNA polymerase, sigma subunit, RpsC/SigC [Nostoc sp. PCC 7107]
gi|427362323|gb|AFY45045.1| RNA polymerase, sigma subunit, RpsC/SigC [Nostoc sp. PCC 7107]
Length = 416
Score = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 109/324 (33%), Positives = 181/324 (55%), Gaps = 26/324 (8%)
Query: 175 NGSKQLRSMISPEL----IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLR 230
N +KQ +++SP L +Q RL + EL + R + G+ L D K
Sbjct: 99 NAAKQGDAVVSPYLRLIEVQERL--------ASELGHRPSLERWAAT--AGVQLSDLKPT 148
Query: 231 LKE---RLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
L E R +I+ EL+ I + ++E ++ +N+RLV+S+A++Y N G ++ DLVQ
Sbjct: 149 LSEGKRRWAEIAKITVEELEQIQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQ 208
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 347
G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A
Sbjct: 209 EGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKA 268
Query: 348 KLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
+ ++ +EKG TP+++ +A L M+ +VR + + SL+ + + GE +
Sbjct: 269 QRKIAQEKGRTPTLEDLAIELEMTPSQVREVLLRVPRSVSLETKVGKDKDTELGELLETD 328
Query: 407 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRI 465
P + +L+ ++ L + L RER++I + +GL D + +I + +
Sbjct: 329 SV------TPEEMLMRESLQRDLQNL-LADLTTRERDVILMRFGLADGHPYSLAEIGRAL 381
Query: 466 GLSRERVRQVGLVALEKLKHAARK 489
LSRERVRQ+ AL+KL+ R+
Sbjct: 382 DLSRERVRQIESKALQKLRQPKRR 405
>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 = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 183/314 (58%), Gaps = 31/314 (9%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y++ + LLT E +RL++ ++ G + ERL + P +
Sbjct: 133 LDDPVRMYLREIGRVPLLTAHEEIRLAQLMERGKA---------ERLKPA-----PNYRY 178
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
I E A+++L +N+RLV+S+A++Y G ++ DL+Q G IGL+R +EKFD +KGFK
Sbjct: 179 I-SEGEEAQKRLTEANLRLVVSVAKKYIGRGMNLLDLIQEGNIGLIRAVEKFDYNKGFKF 237
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L++ G P+ + IA +
Sbjct: 238 STYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRISRRLLQDLGREPTSEEIAAQM 297
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDW 423
+S +KVR ++ + +E SL GE S++ D +E++ P
Sbjct: 298 EISAEKVR-------EIIKVSQEPV-SLETPIGEEDDSHLGDF-IEDHTALAPADAASHQ 348
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK++V ++ +L ERER++++L +GLD T E++ K ++RER+RQ+ AL K
Sbjct: 349 LLKEQVED-VLDSLTERERKVLQLRFGLDDGRSRTLEEVGKEFHVTRERIRQIEAKALRK 407
Query: 483 LKHAARKKKMEAML 496
L+H +R +K++ L
Sbjct: 408 LRHPSRSRKLKDYL 421
>gi|354568141|ref|ZP_08987307.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353541106|gb|EHC10576.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 416
Score = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 91/260 (35%), Positives = 157/260 (60%), Gaps = 9/260 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R +++ EL+ I + ++E ++ +N+RLV+S+A++Y N G ++ DLVQ G +
Sbjct: 153 KRRWAEIAKLTVEELEKIQSDGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKI 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP+++ +A+ L M+ +VR + + SL+ + + GE +
Sbjct: 273 AQEKGRTPTLEDLAQELEMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLETDCV-- 330
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
P + +L+ ++ L + L RER++I + +GL D + + +I + + LSR
Sbjct: 331 ----TPEDMLMRESLQRDLQHL-LADLTSRERDVILMRFGLADGQPYSLAEIGRALDLSR 385
Query: 470 ERVRQVGLVALEKLKHAARK 489
ERVRQ+ AL+KL+ R+
Sbjct: 386 ERVRQIESKALQKLRQPKRR 405
>gi|167970067|ref|ZP_02552344.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra]
gi|254551766|ref|ZP_05142213.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
'98-R604 INH-RIF-EM']
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|375295476|ref|YP_005099743.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
4207]
gi|385995613|ref|YP_005913911.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5079]
gi|392431684|ref|YP_006472728.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
605]
gi|422813758|ref|ZP_16862130.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
CDC1551A]
gi|424948366|ref|ZP_18364062.1| RNA polymerase sigma factor [Mycobacterium tuberculosis NCGM2209]
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]
gi|339295567|gb|AEJ47678.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5079]
gi|358232881|dbj|GAA46373.1| RNA polymerase sigma factor [Mycobacterium tuberculosis NCGM2209]
gi|392053093|gb|AFM48651.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
605]
Length = 333
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 164/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 40 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRDGEA 95
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 96 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 155
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 156 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI--PID 213
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 214 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 265
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 266 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 310
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 311 IERDVMSKLRHGERADRL 328
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KM 492
K+
Sbjct: 364 KL 365
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 91/241 (37%), Positives = 146/241 (60%), Gaps = 11/241 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ K+ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 377 AKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 436
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 373
IRQ +SRA+ + +RT+R+P H+ E + I N +R L+E+G P +D+IAE + + K
Sbjct: 437 IRQAISRAIADQARTIRIPIHMIETINRI-NKIMRKYLQEEGKEPDIDKIAEEVGLPVDK 495
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLI 433
V+N + + SL+ P NG G +++ P + LK++++ +
Sbjct: 496 VKNVIKITKEPISLEA---PIGNGEDG--KFGDFVEDKGSVGPMESILKEDLKEQIDD-V 549
Query: 434 IVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
+ L ERE+ +IR+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH +K
Sbjct: 550 LDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRK 609
Query: 492 M 492
+
Sbjct: 610 L 610
>gi|411118238|ref|ZP_11390619.1| RNA polymerase sigma factor, sigma-70 family [Oscillatoriales
cyanobacterium JSC-12]
gi|410711962|gb|EKQ69468.1| RNA polymerase sigma factor, sigma-70 family [Oscillatoriales
cyanobacterium JSC-12]
Length = 341
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 94/240 (39%), Positives = 141/240 (58%), Gaps = 8/240 (3%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
+ LA+ KLV SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD +G+K STY
Sbjct: 100 QAELAKRKLVRSNLRLVVSIAKKYLNRGVPFLDLIQEGAMGLMRAAEKFDYERGYKFSTY 159
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMS 370
YWWIRQG++RA+ SRT+RLP H+ E+L +R A+ L +K G P+ IA L++
Sbjct: 160 AYWWIRQGITRAIASQSRTVRLPVHMVEKLNQVRKARQMLSQKLGRKPTKQEIAAELDLD 219
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN 430
+ K+ + + SL + G +T + ++ P +D L D +N
Sbjct: 220 EDKLEHVLDVSQGTLSLH-----AWVGREEDTELMQLIEDSDTIAPNECLDHKLLCDRLN 274
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ L +RER+II+L +GL D + T +I + LSRERVRQ+ A+ KL+H R+
Sbjct: 275 S-VLEHLSDRERDIIKLRFGLTDGQHYTLSEIGELYHLSRERVRQIQAKAMRKLRHPRRQ 333
>gi|363420377|ref|ZP_09308469.1| RNA polymerase sigma factor SigB [Rhodococcus pyridinivorans AK37]
gi|359735619|gb|EHK84576.1| RNA polymerase sigma factor SigB [Rhodococcus pyridinivorans AK37]
Length = 320
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 112/320 (35%), Positives = 167/320 (52%), Gaps = 50/320 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L K+RL ++ + +L I+ E
Sbjct: 27 YLNGIGRTALLTAADEVELAKRIEAGLYAK-HLLETKKRLSAA---KKRDLAIIVREGQA 82
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 83 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 142
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG + E G+ V+
Sbjct: 143 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELANESGI--PVE 200
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L+ S+ V N EA F D EA + + HS +
Sbjct: 201 KIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSAETAVIAGLLHSDV-------- 252
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ
Sbjct: 253 ---------------RSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQ 297
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ + KL+ R +++ A
Sbjct: 298 IEREVMVKLREGDRAERLRA 317
>gi|406830145|ref|ZP_11089739.1| RNA polymerase sigma factor RpoD [Schlesneria paludicola DSM 18645]
Length = 553
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 145/247 (58%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +L N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +G+K STY WW
Sbjct: 306 AMRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 365
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + +R R L+EKG P+++ AE +S ++
Sbjct: 366 IRQAITRAIADQARTIRIPVHMIETMSKLRKVSKRLLQEKGREPTIEETAEAAGVSLEET 425
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 430
R + SLDR GE+ SY D +E++ P + LKD+++
Sbjct: 426 RRVLKISRHPISLDRPV--------GESEDSYFGDF-IEDDSTESPVNSATQEMLKDKID 476
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+++ TL REREII+L YGL D T E++ + ++RERVRQ+ A+ KL+H R
Sbjct: 477 -VVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRS 535
Query: 490 KKMEAML 496
K+++ L
Sbjct: 536 KQLKGFL 542
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 172 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 231
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L M+++KV
Sbjct: 232 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANELGMTEEKV 291
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 292 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 343
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 344 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 402
Query: 491 KMEAML 496
++ L
Sbjct: 403 RIRDFL 408
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 90/253 (35%), Positives = 153/253 (60%), Gaps = 8/253 (3%)
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L ++ E A++ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD ++G
Sbjct: 212 LDQMITEGIQAKDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRG 271
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 364
++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG T S++ IA
Sbjct: 272 YRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTASIEDIA 331
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
L M+ +VR + + SL+ + G +T + D+ +P + A
Sbjct: 332 AELGMTAPQVREVLLRVPRSVSLETKV-----GNEKDTELGDLLDDADSVSPEELLMREA 386
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
L ++ +L + L RER++I + +GL D + +I + + LSRERVRQ+ AL+KL
Sbjct: 387 LHRDLQQL-LADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKL 445
Query: 484 KHAARKKKMEAML 496
+ R+ ++ L
Sbjct: 446 RQPKRRNRVRDYL 458
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 161/274 (58%), Gaps = 21/274 (7%)
Query: 235 LGSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
+ S ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 409 IASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 468
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 469 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 528
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
++ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 529 SRQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 580
Query: 407 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 462
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 581 LGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 639
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 640 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 673
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 108/309 (34%), Positives = 177/309 (57%), Gaps = 34/309 (11%)
Query: 200 VVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLAR- 257
V++EE E + LS + G+S++D ++ LKE I + L S E LA+
Sbjct: 75 VITEEDEVDVEKIDLS--VPDGISIEDPVRMYLKE-------IGKVPLLSAEEEIELAKR 125
Query: 258 ---------EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 126 MAEGDEDAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYEKGFKF 185
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE L
Sbjct: 186 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEL 245
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
+M ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 246 DMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATL 297
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ + ++ TL +RE++++RL +G+ D T E++ K ++RER+RQ+ AL KL
Sbjct: 298 LKEQLGE-VLNTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKL 356
Query: 484 KHAARKKKM 492
+H +R +K+
Sbjct: 357 RHPSRSRKL 365
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 110/326 (33%), Positives = 188/326 (57%), Gaps = 22/326 (6%)
Query: 171 ILQQNGSKQLRSMISP--ELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
I+ N +KQ ++I P LI+ V+ +S EL + R +K G+ L D K
Sbjct: 96 IVLANAAKQGDTVIVPYQRLIE------VQERLSSELGHRPSLERWAKT--AGIDLADLK 147
Query: 229 LRL---KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 285
L K R ++ EL+++ + A+E ++ +N+RLV+S+A++Y N G ++ DL
Sbjct: 148 PTLLEGKRRWAEIAKLKVEELENVQSQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDL 207
Query: 286 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIR 345
VQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+
Sbjct: 208 VQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIK 267
Query: 346 NAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 404
A+ ++ +EKG TP+++ +A L+M+ +VR + + SL+ + + GE
Sbjct: 268 KAQRKISQEKGRTPTLEDLAIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGE--- 324
Query: 405 SYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISK 463
+ + + P + +L+ +++ L + L RER++I + +GL D + +I +
Sbjct: 325 -LLETDSI--TPEEMLMRESLQKDLHHL-LADLTSRERDVILMRFGLSDGHPYSLAEIGR 380
Query: 464 RIGLSRERVRQVGLVALEKLKHAARK 489
+ LSRERVRQ+ AL+KL+ R+
Sbjct: 381 ALDLSRERVRQIESKALQKLRQPKRR 406
>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|429761231|ref|ZP_19293661.1| RNA polymerase sigma factor RpoD [Anaerostipes hadrus DSM 3319]
gi|167710361|gb|EDS20940.1| RNA polymerase sigma factor RpoD [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]
gi|429184255|gb|EKY25278.1| RNA polymerase sigma factor RpoD [Anaerostipes hadrus DSM 3319]
Length = 363
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 185
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE +++ ++V
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEMDIPVERV 245
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + N P LK+++++
Sbjct: 246 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDENVPVPADAAAFTLLKEQLDE 297
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 298 -VLGTLTEREQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 356
Query: 491 KMEAML 496
K++ L
Sbjct: 357 KLKDYL 362
>gi|359771709|ref|ZP_09275155.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
gi|359311145|dbj|GAB17933.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
Length = 329
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 106/304 (34%), Positives = 169/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+TGL H L ++RL + + + +L I+ E
Sbjct: 36 YLNGIGRTALLNAEQEVELAKQIETGLYAK-HVLATRKRLSA---VKKRDLAQIIREGEA 91
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 92 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 151
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 152 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAAESGIPAEKI 211
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L +V +
Sbjct: 212 ADLLDHSRDPVSLDMPVGTDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDV-R 262
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ +GLD + T + I + GLSRERVRQ+ + KL+H R +
Sbjct: 263 TVLGTLDEREQQVIRMRFGLDDGQPRTLDQIGRLFGLSRERVRQIEREVMVKLRHGDRAE 322
Query: 491 KMEA 494
++ A
Sbjct: 323 RLRA 326
>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|224991077|ref|YP_002645766.1| RNA polymerase sigma factor SigB [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|339632722|ref|YP_004724364.1| RNA polymerase sigma factor SigB [Mycobacterium africanum GM041182]
gi|340627711|ref|YP_004746163.1| RNA polymerase sigma factor SIGB [Mycobacterium canettii CIPT
140010059]
gi|378772440|ref|YP_005172173.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Mexico]
gi|385999490|ref|YP_005917789.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CTRI-2]
gi|386005585|ref|YP_005923864.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
RGTB423]
gi|392387342|ref|YP_005308971.1| sigB [Mycobacterium tuberculosis UT205]
gi|397674619|ref|YP_006516154.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis H37Rv]
gi|424805050|ref|ZP_18230481.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis W-148]
gi|433627826|ref|YP_007261455.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140060008]
gi|433631811|ref|YP_007265439.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070010]
gi|433635772|ref|YP_007269399.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070017]
gi|433642896|ref|YP_007288655.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070008]
gi|1171103|gb|AAA86044.1| sigma factor MysB [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]
gi|339332078|emb|CCC27784.1| RNA polymerase sigma factor SIGB [Mycobacterium africanum GM041182]
gi|340005901|emb|CCC45067.1| RNA polymerase sigma factor SIGB [Mycobacterium canettii CIPT
140010059]
gi|341602623|emb|CCC65299.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Moreau RDJ]
gi|344220537|gb|AEN01168.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CTRI-2]
gi|356594761|gb|AET19990.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Mexico]
gi|378545893|emb|CCE38171.1| sigB [Mycobacterium tuberculosis UT205]
gi|380726073|gb|AFE13868.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
RGTB423]
gi|395139524|gb|AFN50683.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis H37Rv]
gi|432155432|emb|CCK52682.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140060008]
gi|432159444|emb|CCK56748.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070008]
gi|432163404|emb|CCK60812.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070010]
gi|432167365|emb|CCK64876.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070017]
gi|440582187|emb|CCG12590.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium tuberculosis
7199-99]
gi|444896247|emb|CCP45508.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Rv]
Length = 323
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 164/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 30 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRDGEA 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI--PID 203
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 204 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 255
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 256 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 300
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 301 IERDVMSKLRHGERADRL 318
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 490 KKMEAML 496
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|384566591|ref|ZP_10013695.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
glauca K62]
gi|384522445|gb|EIE99640.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
glauca K62]
Length = 343
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ H L + L R EL +I+ +
Sbjct: 50 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHMLDTSDDLSPE---RREELTAIVRDGEN 105
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 106 AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 165
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A +++ KV
Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAAESGIAEAKV 225
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 226 ASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLLQDDLRR-VL 279
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+H R ++
Sbjct: 280 ATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMTKLRHGERADRLR 339
Query: 494 A 494
A
Sbjct: 340 A 340
>gi|425445125|ref|ZP_18825161.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9443]
gi|389734954|emb|CCI01463.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9443]
Length = 435
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 154/244 (63%), Gaps = 9/244 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 185 ELEEIIALGTHAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQIRGRTATVEEI 304
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A+ L ++ + VR + + SL+ + G +T + + ++ H V +
Sbjct: 305 AQELALTPEAVREVLMTVPRSVSLEIKV-----GKEKDTELIDLLETEAVSSENHFVYE- 358
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RERE+I L YG LD + + DI + + LSRERVRQ+ AL+K
Sbjct: 359 SLQRDIREL-LADLTTREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIESKALQK 417
Query: 483 LKHA 486
L+ +
Sbjct: 418 LRQS 421
>gi|15223259|ref|NP_172330.1| RNApolymerase sigma subunit 2 [Arabidopsis thaliana]
gi|75219074|sp|O22056.2|SIGB_ARATH RecName: Full=RNA polymerase sigma factor sigB; Short=Sigma factor
B; Short=Sigma-B; AltName: Full=Protein ABERRANT
CHLOROPLAST 1; AltName: Full=RNA polymerase sigma factor
sig1; Short=Atsig1; Short=Sigma factor 1; AltName:
Full=RNA polymerase sigma factor sig2; Short=Atsig2;
Short=Sigma factor 2; AltName: Full=RNA polymerase sigma
factor sigA; Short=Sigma factor A; Short=Sigma-A; Flags:
Precursor
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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 110/338 (32%), Positives = 187/338 (55%), Gaps = 18/338 (5%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLR 230
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTE 297
Query: 231 LKERLG---------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 281
L ER G S+ + + L+ + +L ++K++ SN+RLV+SIA+ Y G +
Sbjct: 298 LTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMN 357
Query: 282 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 341
+ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 LQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEAT 417
Query: 342 GLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
++ A+ +L E G P + IAE +S K++ + SLD++ + N P
Sbjct: 418 YRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPS 477
Query: 401 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWE 459
E IAD + + ++ ++ +++K ++ +LG RE+++IR +G+ D T +
Sbjct: 478 EV----IADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKTLQ 531
Query: 460 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 497
+I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 532 EIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>gi|428770639|ref|YP_007162429.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428684918|gb|AFZ54385.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 318
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 103/303 (33%), Positives = 176/303 (58%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y+K + LLT E + L+K+I+ ++L+ + LK++L + +IS
Sbjct: 11 IRVYLKEIGRIPLLTKEEEIVLAKQIQELVALEKKRETLKKKLEREPSKKEWAEAAKISE 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
L + A+ K+V +N+RLV+SIA++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 71 KNLDIKISRGEKAKRKMVEANLRLVVSIAKKYLKHNLDLLDLIQEGTIGMQRGVEKFDPK 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SR +RLP H+ E+L IR + +L EEKG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
++E L ++ ++VR+ + SLD + G +T + +++ + +P D
Sbjct: 191 LSEALELTTEQVRDYLGKARQPLSLDLKV-----GDNNDTELGELLEDKGQ-SPEDFTDY 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
L+ ++ ++ + L ++++++IRL YGLD + LT I + +SRERVRQ+ AL
Sbjct: 245 SCLQFDLRRM-MSDLTQQQQDVIRLRYGLDDGKPLTLSKIGTILNISRERVRQIEREALT 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 102 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 161
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 162 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 221
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 222 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 275
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 276 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 335
Query: 494 AMLV 497
V
Sbjct: 336 DFKV 339
>gi|383831200|ref|ZP_09986289.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
gi|383463853|gb|EID55943.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
Length = 468
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 166 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVAEEEGEKLSTQMRRDLKWI 224
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 225 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 284
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 285 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 342
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 343 MDISPEKVLEIQQYAREPISLDQ--------TIGDEGDSQLGDFIEDSEAVVAVDAVSFT 394
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 395 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 453
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 454 LRHPSRSQ 461
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 178/320 (55%), Gaps = 21/320 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR----- 243
I++ ++ Y+K + LL+ E + L+K ++ G + LK R +
Sbjct: 115 IEDPVRMYLKEIGKVPLLSAEEEIELAKNMEAGAVAKEKIAILKSREEKATEEELAEIKE 174
Query: 244 --PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
LQ L A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 175 EIKNLQKDLDAGDEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFD 234
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 360
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS
Sbjct: 235 YRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSP 294
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PW 417
+ IA +NM ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 295 EEIAAEMNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPA 346
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
LK+++ + ++ TL ERE++++ L +GL D T E++ K ++RER+RQ+
Sbjct: 347 DAAAFTLLKEQLEE-VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIE 405
Query: 477 LVALEKLKHAARKKKMEAML 496
AL KL+H +R +K++ L
Sbjct: 406 AKALRKLRHPSRSRKLKDYL 425
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 96/274 (35%), Positives = 162/274 (59%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRL---KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+ L D K L K R +++ EL+ + + A+E ++ +N+RLV+S+A++Y N
Sbjct: 165 GIELVDLKPTLANGKRRWAEIAQLTVEELEQVQSQGLQAKEHMIKANLRLVVSVAKKYQN 224
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 225 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 284
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR + + SL+ + +
Sbjct: 285 TEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPTQVREVLLKVPRSVSLETKVGKDKD 344
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L+ +++ L + L RER++I + +GL D
Sbjct: 345 TELGELLETDCV------TPEEMLMRESLQKDLHSL-LADLTSRERDVILMRFGLSDGHP 397
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 398 YSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 431
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 107/308 (34%), Positives = 178/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + +L L S L +L +++
Sbjct: 99 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEERLTGTPDLDSRLA---GDLDRLVVM 154
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 155 GRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 214
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + IA L+++
Sbjct: 215 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVELDLTP 274
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V TE V L +E SL+ GE D + + V+ A L +
Sbjct: 275 ERV---TE----VLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 326
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L +L+ A
Sbjct: 327 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 386
Query: 489 KKKMEAML 496
++ L
Sbjct: 387 ADQLRGYL 394
>gi|421526802|ref|ZP_15973408.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum ChDC
F128]
gi|402256910|gb|EJU07386.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum ChDC
F128]
Length = 427
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 189 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 248
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 249 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 308
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 309 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELD-AVL 362
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 363 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 422
Query: 494 AMLV 497
V
Sbjct: 423 DFKV 426
>gi|428204671|ref|YP_007083260.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427982103|gb|AFY79703.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 318
Score = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 176/308 (57%), Gaps = 26/308 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPEL------ 246
++ Y++ + LLTH E + +K+++ + L++ K LK++LG S
Sbjct: 11 VRAYLREIGRVPLLTHEEEIHYAKRVQRLVVLENLKESLKQKLGKEPTDSEWAAAAELTE 70
Query: 247 ---QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
++ + A+ K+V +N+RLV+S+A++Y D+ DL+Q G +G+ RG+EKFD +
Sbjct: 71 AELRNCIAAGDAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTLGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +E G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQENGRAATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ K+VR E + SLD G+ H + + + + + +D
Sbjct: 191 LAQELELTPKQVREYLERARQPLSLDLRV--------GDNHDTELGE--LLEDTGLLPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++ KL + L ++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 YAIHSSLQLDLEKL-MADLTPQQREVLALRFGLTDGKPLTLAKIGIRLNISRERVRQIER 299
Query: 478 VALEKLKH 485
AL KL+
Sbjct: 300 EALSKLRQ 307
>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 = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 175/318 (55%), Gaps = 31/318 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-------------- 236
+ ++ Y++ + LL E + L++KI L L+ + + +R+G
Sbjct: 88 DSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPDTLWA 147
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++S PE + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 148 EEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 207
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ KL +E G
Sbjct: 208 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKLLSQELG 267
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + ++ +K+R F P SL G+ S + D +E+
Sbjct: 268 RKPTEEEIATRMEITIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 317
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER++++L YGLD + T E+I + ++RE
Sbjct: 318 DGETPEDRVAKVLLREDLES-VLETLTARERDVLKLRYGLDDGRMKTLEEIGQIFNVTRE 376
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 377 RIRQIEAKALRKLRHPNR 394
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 104/313 (33%), Positives = 171/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT AE V L+ KI+ G D +
Sbjct: 100 INDPVRMYLKEIGRVNLLTAAEEVELAIKIEEG----DQE-------------------- 135
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 136 -------ARQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYKKGFKF 188
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 189 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 248
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +++ ++ A
Sbjct: 249 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPAENAAYEL 300
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+ AL KL
Sbjct: 301 LKEQLED-VLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAKALRKL 359
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 360 RHPSRSKQLKDFL 372
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 494 AMLV 497
V
Sbjct: 414 DFKV 417
>gi|359767854|ref|ZP_09271636.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans NBRC
16320]
gi|359314770|dbj|GAB24469.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans NBRC
16320]
Length = 339
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L ++RL ++ + +L +++ E
Sbjct: 46 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLATRKRLSAA---KKRDLNTVVREGEA 101
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 102 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 161
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ I K L ++ G + D +A + +K+
Sbjct: 162 IRQAITRGMADQSRTIRLPVHLVEQVNKIARIKRELHQQLGREATDDELANESGIPAEKI 221
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L +V +
Sbjct: 222 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDV-R 272
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+ R +
Sbjct: 273 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRQGDRAE 332
Query: 491 KMEA 494
++ A
Sbjct: 333 RLRA 336
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 147/242 (60%), Gaps = 7/242 (2%)
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
+++SN+RLV++IA+RY+NMG ++ DL+Q G +GL+ G+EKFD S+GFK STY YWWI Q
Sbjct: 1 MILSNLRLVVAIARRYENMGVEIGDLIQEGTLGLIHGLEKFDVSRGFKFSTYAYWWIFQA 60
Query: 320 VSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNAT 378
+ R+L + + +R P HL E + I + R ++++ V SV+ + + L + + ++ A
Sbjct: 61 MIRSLDKRGKCVRYPFHLCEAIRKINQLRNRQVDDRPV--SVETMMQVLKLPRARIEIAL 118
Query: 379 EAIG-KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 437
+A ++ SLDR G+ +I D VEN PW + A+K+E+++L+ L
Sbjct: 119 QASNYRLTSLDRHVANKRCFEEGDPLEDFIVDQNVENQPWLMAERDAVKEELDRLLESKL 178
Query: 438 GEREREIIRLYYGL---DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
RERE+IR +GL L+ +I + G+SRERVRQ+ A+ KL+ + ME
Sbjct: 179 DAREREVIRKRFGLHPNQTSPLSRHEIGRSCGISRERVRQLENDAMAKLRACKSRLSMEF 238
Query: 495 ML 496
+L
Sbjct: 239 LL 240
>gi|300784474|ref|YP_003764765.1| RNA polymerase primary-like sigma factor [Amycolatopsis
mediterranei U32]
gi|399536359|ref|YP_006549021.1| RNA polymerase primary-like sigma factor [Amycolatopsis
mediterranei S699]
gi|299793988|gb|ADJ44363.1| RNA polymerase primary-like sigma factor [Amycolatopsis
mediterranei U32]
gi|398317129|gb|AFO76076.1| RNA polymerase primary-like sigma factor [Amycolatopsis
mediterranei S699]
Length = 343
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ A+ V L+K+I+ G+ H L E L + R EL +++ + +
Sbjct: 50 YLNGIGKTALLSAADEVELAKRIEAGV-FAQHMLDTGENLTTK---RRTELAALVRDGHV 105
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 106 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 165
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A + K+
Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGRDATHEELAAESGIPAHKI 225
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 226 SDLLDHSRDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESAVISGLLQDDLRR-VL 279
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+ +IRL YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 280 ATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLRQGERADRLR 339
Query: 494 A 494
A
Sbjct: 340 A 340
>gi|433449559|ref|ZP_20412423.1| RNA polymerase sigma factor RpoD [Weissella ceti NC36]
gi|429539073|gb|ELA07111.1| RNA polymerase sigma factor RpoD [Weissella ceti NC36]
Length = 377
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 109/356 (30%), Positives = 181/356 (50%), Gaps = 45/356 (12%)
Query: 146 VTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEEL 205
+ SG+S + ++ L K+ L KQ + I + ++ Y+K + L
Sbjct: 61 IESSGISIVDEKGEPTERALKNRKTALSAKELKQAADAPTGMKINDPVRMYLKEIGRVSL 120
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNV 265
LT + V L+++I+ G LA+++L +N+
Sbjct: 121 LTGEQEVHLAERIEDG-------------------------------DELAKQELAEANL 149
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 150 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 209
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR+ +
Sbjct: 210 DQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIPTEKVRD-------I 262
Query: 385 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D +N D A LK ++ ++ TL RE
Sbjct: 263 LKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYEMLKVQLES-VLDTLTPRE 320
Query: 442 REIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K++ L
Sbjct: 321 EQVLRLRFGLDDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKQLRDFL 376
>gi|428214294|ref|YP_007087438.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria acuminata
PCC 6304]
gi|428002675|gb|AFY83518.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria acuminata
PCC 6304]
Length = 418
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 93/256 (36%), Positives = 154/256 (60%), Gaps = 13/256 (5%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ E A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R ++KFD +K
Sbjct: 168 ELERTQAEGIGAKEHMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTK 227
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG T S++ +
Sbjct: 228 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTASIEDV 287
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 421
A+ L M+ +VR + + SL+ + G+ + + D + +P +
Sbjct: 288 AKELEMTPAQVREVLLRVPRSVSLETKV--------GKEKDTELGDLLETDDISPEEKLM 339
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
AL E++ L + L RER++I + +GL D + +I + + LSRERVRQ+ AL
Sbjct: 340 QEALHRELHHL-LADLTSRERDVIGMRFGLTDGHPYSLAEIGRALDLSRERVRQIESKAL 398
Query: 481 EKLKHAARKKKMEAML 496
+KL+ R+ ++ L
Sbjct: 399 QKLRQPKRRNRVRDYL 414
>gi|375101493|ref|ZP_09747756.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
gi|374662225|gb|EHR62103.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
Length = 474
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 172 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVAEEEGEKLSTQMRRDLKWI 230
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 231 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 290
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 291 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 348
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 349 MDISPEKVLEIQQYAREPISLDQ--------TIGDEGDSQLGDFIEDSEAVVAVDAVSFT 400
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 401 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 459
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 460 LRHPSRSQ 467
>gi|16331621|ref|NP_442349.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
gi|383323363|ref|YP_005384217.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383326532|ref|YP_005387386.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383492416|ref|YP_005410093.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384437684|ref|YP_005652409.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451815773|ref|YP_007452225.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|2500787|sp|Q59996.1|RPSC_SYNY3 RecName: Full=Probable RNA polymerase sigma-C factor
gi|1001684|dbj|BAA10419.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339274717|dbj|BAK51204.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359272683|dbj|BAL30202.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359275853|dbj|BAL33371.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359279023|dbj|BAL36540.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|451781742|gb|AGF52711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 404
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 152/244 (62%), Gaps = 15/244 (6%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 213
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 273
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
AE L M+ ++VR + + SL+ + G+ + + D +E + D+
Sbjct: 274 AEELGMTPEQVREVLTQVPRSVSLELKV--------GQDKDTELMD-LLETDTQSPEDEL 324
Query: 424 ---ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
AL++++ + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ A
Sbjct: 325 MREALQNDMQE-ILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKA 383
Query: 480 LEKL 483
L+KL
Sbjct: 384 LQKL 387
>gi|431806681|ref|YP_007233582.1| RNA polymerase sigma factor RpoD [Liberibacter crescens BT-1]
gi|430800656|gb|AGA65327.1| RNA polymerase sigma factor RpoD [Liberibacter crescens BT-1]
Length = 666
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 93/273 (34%), Positives = 157/273 (57%), Gaps = 19/273 (6%)
Query: 235 LGSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
L S IS E + I+ E ++A++++V +N+RLV+ +A++Y N G DL+Q
Sbjct: 400 LASETGISISEFRCIVSMVKKGEREANIAKKEMVEANLRLVICVAKKYSNRGLQFLDLIQ 459
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G IGL++ ++KF+ +G+K STY WWIRQ V+RA+ ++SRT+R+P H+ E + ++R
Sbjct: 460 EGNIGLMKAVDKFEYKRGYKFSTYAMWWIRQAVTRAIADHSRTIRIPVHMIETINKIVRT 519
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
++ L E G P+ D +AE L M +KVR KV + +E SL G+ S+
Sbjct: 520 SRQMLNEIGREPTPDELAEKLIMPLEKVR-------KVLKIAKEPI-SLETPVGDEEDSH 571
Query: 407 IADNRVENNPWHGVDDWALKD--EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISK 463
+ D + N +D + E L++ +L RE ++R+ +G+ T E++ +
Sbjct: 572 LGDFIEDKNAISPIDAAIQSNLRETTTLVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 631
Query: 464 RIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ ++RER+RQ+ AL KLKH +R KK+ + L
Sbjct: 632 QFSVTRERIRQIEAKALRKLKHPSRSKKLRSFL 664
>gi|418463311|ref|ZP_13034327.1| RNA polymerase sigma factor SigB [Saccharomonospora azurea SZMC
14600]
gi|359733714|gb|EHK82704.1| RNA polymerase sigma factor SigB [Saccharomonospora azurea SZMC
14600]
Length = 313
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ G+ H L + L R R EL I+ +
Sbjct: 20 YLNGIGKTALLTAAQEVDLAKRIEAGV-FARHMLDTSDDLS---RERRAELAMIVRDGEQ 75
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 76 AKTHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 135
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A +++ KV
Sbjct: 136 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAAESGIAESKV 195
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L D++ + ++
Sbjct: 196 ASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLLSDDLRR-VL 249
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+H R ++
Sbjct: 250 ATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMSKLRHGERADRLR 309
Query: 494 A 494
A
Sbjct: 310 A 310
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 264 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 323
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 324 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 383
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 384 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 437
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 438 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 497
Query: 494 AMLV 497
V
Sbjct: 498 DFKV 501
>gi|257791063|ref|YP_003181669.1| RpoD subfamily RNA polymerase sigma-70 subunit [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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 108/322 (33%), Positives = 182/322 (56%), Gaps = 30/322 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL-------DDHKLRLKERLGSSLR 240
L + ++ Y+K + LLT AE + L+ KI+ G++ +D + L+ R R
Sbjct: 103 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAAMEELEKAEDEGIELERR--EKRR 160
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ R E I A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 161 LGRIEQVGID-----AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 215
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS
Sbjct: 216 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPS 275
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---- 415
+ I + + + ++VR ++ + +E SL GE S + D +E++
Sbjct: 276 PEEIGKEMGLPAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAAVV 326
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
P L+++++K ++ L ERER++I L +GL D T E++ + G++RER+RQ
Sbjct: 327 PPDAASFSMLQEQLSK-VLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQ 385
Query: 475 VGLVALEKLKHAARKKKMEAML 496
+ L KL+H +R K++ L
Sbjct: 386 IESKTLAKLRHPSRSSKLKDYL 407
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 95/266 (35%), Positives = 152/266 (57%), Gaps = 13/266 (4%)
Query: 236 GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
+ L +S +LQ L+ AR++++ +N+RLV+++A++Y G ++ DLVQ G +GL R
Sbjct: 138 AACLDLSLSDLQQRLLRGRRARDRMIQANLRLVVAVAKKYQKRGVELLDLVQEGTLGLER 197
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 354
+EK+D ++GF+ STY YWWIRQGV+RA+ SRT+RLP H+ E+L I+ A+ + +
Sbjct: 198 AVEKYDPTRGFRFSTYAYWWIRQGVTRAIATQSRTIRLPVHVTEKLNRIKKAQRQFASDH 257
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRV 412
G T S+ +AE L S++ VR + + SL+ + G + + D
Sbjct: 258 GRTASLAELAEALQWSEEAVRLTLLRVPRSISLEAKV--------GRDQDTPLGDLLEAT 309
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 471
+ P + L +++ L+ L ERE E+IRL +GL D T I + + LSRER
Sbjct: 310 SDTPEQSLTRQQLHSDLDALLD-ELSEREAEVIRLRFGLADDTPRTLAQIGEGMQLSRER 368
Query: 472 VRQVGLVALEKLKHAARKKKMEAMLV 497
VRQ+ AL KL+ AR+ ++ L
Sbjct: 369 VRQIETRALHKLRQPARRCRVHDYLA 394
>gi|153853334|ref|ZP_01994743.1| hypothetical protein DORLON_00730 [Dorea longicatena DSM 13814]
gi|149754120|gb|EDM64051.1| RNA polymerase sigma factor RpoD [Dorea longicatena DSM 13814]
Length = 369
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 132 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 252 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 304 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 362
Query: 491 KMEAML 496
K+ L
Sbjct: 363 KLRDYL 368
>gi|428774079|ref|YP_007165867.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium stanieri
PCC 7202]
gi|428688358|gb|AFZ48218.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium stanieri
PCC 7202]
Length = 389
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 96/285 (33%), Positives = 170/285 (59%), Gaps = 22/285 (7%)
Query: 224 LDDHKLRLKERLGSSLR-------ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYD 276
LD L+L++ L S + +S EL+ IL A+++++ +N+RLV+SIA++Y
Sbjct: 111 LDFTSLQLEQVLQSGFQKWAELADLSVDELREILSVGKRAKQQMINANLRLVVSIAKKYQ 170
Query: 277 NMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNH 336
N G D+ DL+Q G +GL + +EKFD KG+ STY YWWIRQG++RA+ SR++R+P H
Sbjct: 171 NRGLDLLDLIQEGTLGLEKAVEKFDYRKGYHFSTYSYWWIRQGMTRAIATQSRSIRIPIH 230
Query: 337 LHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSL 395
+ E+L L++ + +L + G TP + +AE + M+ ++R+ I + SL+ +
Sbjct: 231 ITEKLNLLKKTQRQLSQALGRTPKAEELAEKMEMTTFELRSFLSQIPRSISLETKV---- 286
Query: 396 NGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL- 451
GE +++ + + +E + P + +++ +V+ L + TL ERE +I+RL YG
Sbjct: 287 ----GEDYNTELVE-LIETDSATPEENLMLLSMRQDVSTL-LDTLSEREAKILRLRYGFE 340
Query: 452 DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
D + + D ++ + LSRERVRQ+ A++KL+ ++++ L
Sbjct: 341 DGKTYSLSDTAQMMHLSRERVRQIQAKAIQKLRQPNTRQQLHDYL 385
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/291 (35%), Positives = 162/291 (55%), Gaps = 11/291 (3%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP--EL 246
+Q+ + ++K + LLT E +RL+ +++ ++L + + + G S R+ P EL
Sbjct: 7 LQDAVGRFLKTIGRYSLLTAEEELRLAHQVQRMVTLLEQRQPHESVEGWSQRLGIPLAEL 66
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
Q IL + A++++V N+RLV+SIA+RY N G DL+Q G IGL R +EKFD ++G+
Sbjct: 67 QQILRQGEAAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGLTRAVEKFDPTRGY 126
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAE 365
K STY WWIRQ V+R + R +RLP H++E++ ++ L E+G P + + +
Sbjct: 127 KFSTYATWWIRQSVNRGIQNKGRMIRLPAHMYEKVSQVKRRYRELSAERGSRPQAEEVFD 186
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 425
L++ N E I + + R + G +I D +N+P + A
Sbjct: 187 SLDIGD----NYRELITRHMAEMRSLNVGVGDEDGTELQHFIPDE--DNDPVEHLTQLAR 240
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV 475
++EV L + L ERER++I YGLD LT +I + IGLSRERVRQ+
Sbjct: 241 REEVRAL-VGQLSERERQVIVARYGLDGSRGLTLREIGEHIGLSRERVRQI 290
>gi|378717650|ref|YP_005282539.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans VH2]
gi|375752353|gb|AFA73173.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans VH2]
Length = 339
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L ++RL ++ + +L +++ E
Sbjct: 46 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLATRKRLSAA---KKRDLNTVVREGEA 101
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 102 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 161
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ I K L ++ G + D +A + +K+
Sbjct: 162 IRQAITRGMADQSRTIRLPVHLVEQVNKIARIKRELHQQLGREATDDELANESGIPAEKI 221
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L +V +
Sbjct: 222 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDV-R 272
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+ R +
Sbjct: 273 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRQGDRAE 332
Query: 491 KMEA 494
++ A
Sbjct: 333 RLRA 336
>gi|346306557|ref|ZP_08848712.1| RNA polymerase sigma factor rpoD [Dorea formicigenerans 4_6_53AFAA]
gi|345908260|gb|EGX77917.1| RNA polymerase sigma factor rpoD [Dorea formicigenerans 4_6_53AFAA]
Length = 376
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 139 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 198
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 258
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 259 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 310
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 311 -VLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 369
Query: 491 KMEAML 496
K+ L
Sbjct: 370 KLRDYL 375
>gi|269121540|ref|YP_003309717.1| RpoD subfamily RNA polymerase sigma-70 subunit [Sebaldella
termitidis ATCC 33386]
gi|268615418|gb|ACZ09786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sebaldella
termitidis ATCC 33386]
Length = 387
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 151/249 (60%), Gaps = 8/249 (3%)
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 306
Q +L A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGF
Sbjct: 141 QKVLENDEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGF 200
Query: 307 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAE 365
K STY WWIRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G + + +A+
Sbjct: 201 KFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEATAEELAK 260
Query: 366 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 425
L + KV++ E SL+ + G+ ++ D++ NP+ L
Sbjct: 261 KLEIPVDKVKSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-LNPYDATTRVLL 315
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
K++++ ++ TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+
Sbjct: 316 KEQLDG-VLKTLSEREEMVLRYRYGLDDGSPKTLEEVGKIFNVTRERIRQIEVKALRKLR 374
Query: 485 HAARKKKME 493
H +R+KK+E
Sbjct: 375 HPSRRKKLE 383
>gi|427729632|ref|YP_007075869.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427365551|gb|AFY48272.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 388
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 173/314 (55%), Gaps = 16/314 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIK---------TGLSLDDHKLRLKERLGSSLRISRPE 245
+ K + LL E V L+K+++ L L+ + K ++ I+ +
Sbjct: 80 AFFKEMARYPLLKPDEEVELAKRVRFLEDVKDLQEALELELGQQPTKAQIADKFEITEKQ 139
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 140 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 199
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS IA
Sbjct: 200 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEIA 259
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E+L MS +++R + + SL+ G +T + ++ +P +++
Sbjct: 260 EFLEMSVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 314
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 315 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 374
Query: 484 KHAARKKKMEAMLV 497
+ K+++ L+
Sbjct: 375 RRPHIAKRLKGWLI 388
>gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299]
gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299]
Length = 595
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 106/312 (33%), Positives = 171/312 (54%), Gaps = 23/312 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + + LLT AE V L+K+I+ + L+ RL+E G P +E
Sbjct: 272 MKTYLKDIGTVSLLTGAEEVELAKRIQDLMYLNSVCERLEEENGGK----EPTRFMWAIE 327
Query: 253 CSL--------------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
C++ A+ ++ +N+RLV+SIA+RY N DL+Q G +GL+RG E
Sbjct: 328 CNITEQELERRLEEGKRAKNAMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAE 387
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 357
KFD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + + + ++ K G
Sbjct: 388 KFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQMVLKLGRD 447
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 417
P+ + +A+ + M+ +K++ +A SL + S NG T + D+ E +P
Sbjct: 448 PTHEELADAMEMTVEKIKQIKKASLVPISLSQTVNNS-NGEDKRTVEDTLIDDYTE-HPE 505
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 476
LK+++ ++ TL RER+++RL YGLD T E+I ++RER+RQ+
Sbjct: 506 GETGKVLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERIRQIE 564
Query: 477 LVALEKLKHAAR 488
AL KL+ +R
Sbjct: 565 AKALRKLRQPSR 576
>gi|423137060|ref|ZP_17124703.1| RNA polymerase sigma factor RpoD [Fusobacterium nucleatum subsp.
animalis F0419]
gi|371961127|gb|EHO78770.1| RNA polymerase sigma factor RpoD [Fusobacterium nucleatum subsp.
animalis F0419]
Length = 417
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNKGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 494 AMLV 497
V
Sbjct: 413 DFKV 416
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 167/318 (52%), Gaps = 46/318 (14%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+++I+ GL H L K+RL ++ + +L +I+ +
Sbjct: 29 YLNGIGRTALLTAADEVDLARRIEAGLYAA-HVLATKKRLTAA---KKRDLATIVRDGEA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVD------------RI 363
IRQ ++R + + SRT+RLP HL E++ + K L ++ + D +I
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELSQESGIPEHKI 204
Query: 364 AEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 417
A+ L+ S+ V N EA F D EA + N + HS +
Sbjct: 205 ADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAENAVIAGLLHSDV---------- 254
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 476
+ ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+
Sbjct: 255 -------------RSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIE 301
Query: 477 LVALEKLKHAARKKKMEA 494
+ KL+ R ++ A
Sbjct: 302 REVMGKLRQGERADRLRA 319
>gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis
thaliana]
Length = 572
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 117/356 (32%), Positives = 192/356 (53%), Gaps = 19/356 (5%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVV 212
+ RR +K S S+ + K+ R +++ E+ N Y++ S +LLT E
Sbjct: 221 KARRAKGLEKTASGIPSVKTGSSPKKKR-LVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 213 RLSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPELQSILMECSLAREKLVMS 263
LS I+ L L+ + L ER G S+ + + L+ + +L ++K++ S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 264 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 323
N+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKS 399
Query: 324 LVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 382
L + SR +RLP H+ E ++ A+ +L E G P + IAE +S K++ +
Sbjct: 400 LSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPK 459
Query: 383 KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
SLD++ + N P E IAD P + ++ +++K ++ +LG RE+
Sbjct: 460 PPRSLDQKIGMNQNLKPSEV----IADPEAV-TPEDILIKEFMRQDLDK-VLDSLGTREK 513
Query: 443 EIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 497
++IR +G+ D T ++I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 514 QVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>gi|428203576|ref|YP_007082165.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427981008|gb|AFY78608.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 374
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 109/319 (34%), Positives = 171/319 (53%), Gaps = 36/319 (11%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLR 240
++ ++ Y++ + LL E + L++KI L L+ +L++RLG ++
Sbjct: 63 EDSIRVYLQEIGRIRLLRAEEEIELARKIADLLELERIYEQLRKRLGRFPNNREWAEAVE 122
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 123 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 182
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 183 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 242
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWH 418
+ IA + M+ +K+R F P SL G+ S + D +
Sbjct: 243 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD-------FI 286
Query: 419 GVDDWALKDEVNK--------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
D +DEV+K ++ TL RER+++RL YGLD + T E+I + ++R
Sbjct: 287 EADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 346
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 347 ERIRQIEAKALRKLRHPNR 365
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 157/260 (60%), Gaps = 13/260 (5%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S E+ I E + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 177 MSVEEIVEIQNEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 236
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPS 359
D +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + +G T
Sbjct: 237 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQTQGRTAK 296
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
+ IA+ L+M+ ++R + + SLD + G+ + + D + +P
Sbjct: 297 AEDIAKELDMTVAQIREVLLKVPRSVSLDTKV--------GKDRDTELGDLLETEDISPE 348
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVG 476
+ +LK E+++L + L RE+E+I L +GLD + +I + + LSRERVRQ+
Sbjct: 349 DRLMRESLKRELHQL-LTDLTTREQEVITLRFGLDDGVPYSLAEIGRTLELSRERVRQIE 407
Query: 477 LVALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 408 SKALQKLRQPKRRNRVRDYL 427
>gi|336418702|ref|ZP_08598974.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 11_3_2]
gi|336164379|gb|EGN67286.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 11_3_2]
Length = 416
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 178 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 237
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 238 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 297
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 298 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELD-AVL 351
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 352 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 411
Query: 494 AMLV 497
V
Sbjct: 412 DFKV 415
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 104/313 (33%), Positives = 171/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT AE V L+ KI+ G D +
Sbjct: 100 INDPVRMYLKEIGRVNLLTAAEEVELAIKIEEG----DQE-------------------- 135
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 136 -------ARQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYKKGFKF 188
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 189 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 248
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +++ ++ A
Sbjct: 249 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPAENAAYEL 300
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+ AL KL
Sbjct: 301 LKEQLED-VLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAKALRKL 359
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 360 RHPSRSKQLKDFL 372
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 494 AMLV 497
V
Sbjct: 414 DFKV 417
>gi|389581183|ref|ZP_10171210.1| RNA polymerase sigma factor, sigma-70 family [Desulfobacter
postgatei 2ac9]
gi|389402818|gb|EIM65040.1| RNA polymerase sigma factor, sigma-70 family [Desulfobacter
postgatei 2ac9]
Length = 626
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 388 AKRELVRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + + KV
Sbjct: 448 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEMGKEPSPEEIAEKMEIPIDKV 507
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R +V + +E SL GE S++ D ++ + P D +L ++ K
Sbjct: 508 R-------RVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKKFSIPSEAAIDLSLAEQTRK 559
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL RE +++R+ +G+ +K T E++ K ++RER+RQ+ AL KL+H R K
Sbjct: 560 -ILATLTPREEKVLRMRFGIGEKSDHTLEEVGKDFTVTRERIRQIEAKALRKLRHPTRSK 618
Query: 491 KMEAML 496
K++ +
Sbjct: 619 KLKTFI 624
>gi|182438860|ref|YP_001826579.1| 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
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
griseus XylebKG-1]
Length = 363
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 177/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + +L L S L +L +++
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEERLAGTPDLDSRLA---GDLDRLVVM 122
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 123 GRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 182
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + IA L+++
Sbjct: 183 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVDLDLTP 242
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V + + L +E SL+ GE D + + V+ A L E
Sbjct: 243 ERVTD-------ILRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLREH 294
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L +L+ A
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 489 KKKMEAML 496
++ L
Sbjct: 355 ADQLRGYL 362
>gi|422933316|ref|ZP_16966238.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium
nucleatum subsp. animalis ATCC 51191]
gi|339891223|gb|EGQ80232.1| DNA-directed RNA polymerase sigma subunit RpoD [Fusobacterium
nucleatum subsp. animalis ATCC 51191]
Length = 417
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 494 AMLV 497
V
Sbjct: 413 DFKV 416
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 141 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 200
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV ++ L+MS+ KV
Sbjct: 201 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSAALDMSEDKV 260
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 261 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADGNVVTPEGNVESVMLREHIDA 312
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 313 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 371
Query: 491 KMEAML 496
++ L
Sbjct: 372 RIRDFL 377
>gi|581612|emb|CAA37172.1| unnamed protein product [Streptomyces coelicolor A3(2)]
Length = 396
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ AE V L+++++ GL + KLR G R++ + +++
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGL-FAEEKLRCSP--GLDDRLALDLDRLVVL- 155
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 215
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +A +L++
Sbjct: 216 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDL-- 273
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
A E +G+V L +E SL+ GE + D + + V+ A L +
Sbjct: 274 -----APERVGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQH 327
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 328 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLGGVTRERIRQIESKTLSKLRDHAY 387
Query: 489 KKKMEAML 496
++ L
Sbjct: 388 ADQLRGYL 395
>gi|187736115|ref|YP_001878227.1| RpoD family RNA polymerase sigma-70 subunit [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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 102/318 (32%), Positives = 177/318 (55%), Gaps = 27/318 (8%)
Query: 196 YVKGVVSEELLTHAE-----VVRLSKKIKTGLSLDDHKLRLKERLGS-SLRI-------- 241
Y K V E+ + + V+R+ KK+ +L+ LKE L LR+
Sbjct: 376 YFKHKVIEDFCSMIDEARDRVLRMQKKV----ALEPDNKELKEHLAELELRMWMTADEMG 431
Query: 242 -SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ EL+ L E A++++V +N+RLV+SIA++Y N G DL+Q G +GL++ +EKF
Sbjct: 432 DAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKF 491
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R K ++E G P+
Sbjct: 492 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPT 551
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+ IAE +++ ++VR+ + + SL + G +T +++ NP
Sbjct: 552 PEEIAEEIHLPVERVRSVLKMAQQPISLQ-----APVGDSDDTSFGDFIEDKAAENPMEE 606
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
LK+++ K ++ TL +RERE+I +GL D T E++ ++ ++RER+RQ+
Sbjct: 607 ASFSFLKEKI-KDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAK 665
Query: 479 ALEKLKHAARKKKMEAML 496
AL KL+H R K++ L
Sbjct: 666 ALRKLRHPTRISKIKGFL 683
>gi|404214750|ref|YP_006668945.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gordonia sp. KTR9]
gi|403645549|gb|AFR48789.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gordonia sp. KTR9]
Length = 338
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L K+RL ++ + +L ++ E
Sbjct: 45 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLATKKRLSAA---KKRDLAVVVREGEA 100
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 101 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 160
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 161 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELANESGIPAEKI 220
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L ++ +
Sbjct: 221 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDI-R 271
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+H R +
Sbjct: 272 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRHGDRAE 331
Query: 491 KMEA 494
++ A
Sbjct: 332 RLRA 335
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 494 AMLV 497
V
Sbjct: 413 DFKV 416
>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 = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 153/251 (60%), Gaps = 16/251 (6%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 367 EADAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 426
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ ++M
Sbjct: 427 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLIQELGREPTPEEIADKMDMP 486
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALK 426
KVR KV + +E SL GE S++ D +E+ NP + + L
Sbjct: 487 VDKVR-------KVLKIAKEPI-SLETPVGEEEDSHLGDF-IEDKKVINPAEAIVNLNLA 537
Query: 427 DEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKH 485
++ + ++ TL RE +++R+ +G+ +E T E++ + ++RER+RQ+ AL KL+H
Sbjct: 538 EQTRR-VLSTLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALRKLRH 596
Query: 486 AARKKKMEAML 496
+R K++A +
Sbjct: 597 PSRSNKLKAFV 607
>gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces
roseosporus NRRL 11379]
Length = 363
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 177/308 (57%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL + +L L S L +L +++
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEERLTGTPDLDSRLA---GDLDRLVVM 122
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 123 GRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 182
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + IA L+++
Sbjct: 183 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDIAVELDLTP 242
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE D + + V+ A L +
Sbjct: 243 ERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 294
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+ L +L+ A
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 489 KKKMEAML 496
++ L
Sbjct: 355 ADQLRGYL 362
>gi|341615468|ref|ZP_08702337.1| RNA polymerase sigma factor RpoD [Citromicrobium sp. JLT1363]
Length = 668
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 161/274 (58%), Gaps = 21/274 (7%)
Query: 235 LGSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
+ S ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 402 IASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 461
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 462 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 521
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
++ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 522 SRQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 573
Query: 407 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 462
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 574 LGDFIEDKNAIIPVDAAIQSNLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 632
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 633 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 666
>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 = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 170/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL+ E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLSAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 128 ----DEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|242242833|ref|ZP_04797278.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus
epidermidis W23144]
gi|418630560|ref|ZP_13193041.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU128]
gi|420174675|ref|ZP_14681123.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM061]
gi|420192312|ref|ZP_14698172.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM023]
gi|242233734|gb|EES36046.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus
epidermidis W23144]
gi|374837750|gb|EHS01313.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU128]
gi|394244579|gb|EJD89914.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM061]
gi|394261523|gb|EJE06320.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM023]
Length = 368
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 170/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL+ E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLSAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 128 ----DEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|426402232|ref|YP_007021203.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus str.
Tiberius]
gi|425858900|gb|AFX99935.1| RNA polymerase sigma factor RpoD [Bdellovibrio bacteriovorus str.
Tiberius]
Length = 609
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 153/251 (60%), Gaps = 16/251 (6%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 367 EADAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 426
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ ++M
Sbjct: 427 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLIQELGREPTPEEIADKMDMP 486
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALK 426
KVR KV + +E SL GE S++ D +E+ NP + + L
Sbjct: 487 VDKVR-------KVLKIAKEPI-SLETPVGEEEDSHLGDF-IEDKKVINPAEAIVNLNLA 537
Query: 427 DEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKH 485
++ + ++ TL RE +++R+ +G+ +E T E++ + ++RER+RQ+ AL KL+H
Sbjct: 538 EQTRR-VLSTLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALRKLRH 596
Query: 486 AARKKKMEAML 496
+R K++A +
Sbjct: 597 PSRSNKLKAFV 607
>gi|310827637|ref|YP_003959994.1| RNA polymerase [Eubacterium limosum KIST612]
gi|308739371|gb|ADO37031.1| RNA polymerase [Eubacterium limosum KIST612]
Length = 395
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 158 AKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 217
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ I + + S++KV
Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPAEIGKEMGFSEEKV 277
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R + SL+ GE S++ D ++N P LK+++ +
Sbjct: 278 REIQKIAQDPVSLETPI--------GEEEDSHLGDFIEDDNAPAPSEAASYALLKEQLME 329
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 330 -VLNTLTEREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 388
Query: 491 KMEAML 496
K++ L
Sbjct: 389 KLKDYL 394
>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 = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 178 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 237
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 238 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 297
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 298 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 351
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 352 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 411
Query: 494 AMLV 497
V
Sbjct: 412 DFKV 415
>gi|357974097|ref|ZP_09138068.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. KC8]
Length = 672
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 93/274 (33%), Positives = 161/274 (58%), Gaps = 21/274 (7%)
Query: 235 LGSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
+G + +S PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 406 IGQATGMSLPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 465
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 466 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 525
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
++ L E G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 526 SRQILHEIGREPTPEELAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 577
Query: 407 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 462
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 578 LGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 636
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 637 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 670
>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 = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 137 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRIAEEEGEKLSTQMRRDLKWI 195
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 196 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 255
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 256 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 313
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 314 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 365
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 366 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 424
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 425 LRHPSRSQ 432
>gi|166030947|ref|ZP_02233776.1| hypothetical protein DORFOR_00628 [Dorea formicigenerans ATCC
27755]
gi|166029214|gb|EDR47971.1| RNA polymerase sigma factor RpoD [Dorea formicigenerans ATCC 27755]
Length = 382
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 145 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 204
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 264
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 265 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 316
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 317 -VLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 375
Query: 491 KMEAML 496
K+ L
Sbjct: 376 KLRDYL 381
>gi|374608203|ref|ZP_09681002.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
tusciae JS617]
gi|373553735|gb|EHP80322.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
tusciae JS617]
Length = 319
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 168/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLATRKRLGEN---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ +
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGRDATDEELAEESGI--PAE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L+ S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KIADLLSHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R +++
Sbjct: 297 IEREVMAKLRNGERAERL 314
>gi|422338350|ref|ZP_16419310.1| RNA polymerase sigma factor RpoD [Fusobacterium nucleatum subsp.
polymorphum F0401]
gi|355372266|gb|EHG19607.1| RNA polymerase sigma factor RpoD [Fusobacterium nucleatum subsp.
polymorphum F0401]
Length = 418
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 435 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 494 AMLV 497
V
Sbjct: 414 DFKV 417
>gi|375094960|ref|ZP_09741225.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
gi|374655693|gb|EHR50526.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
Length = 470
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 168 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVAEEEGEKLSTQMRRDLKWI 226
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 227 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 286
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 287 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 344
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 345 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 396
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 397 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 455
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 456 LRHPSRSQ 463
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 93/257 (36%), Positives = 150/257 (58%), Gaps = 18/257 (7%)
Query: 252 ECSLAREK----------LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
E LAR K LV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD
Sbjct: 157 ETDLARRKSEGDAEAGRQLVEANLRLVVSIAKRYTGRGMGFLDLVQEGNLGLMKAVEKFD 216
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
SKG+++STY WW++Q ++R+L + SRT+RLP H+ E + IR A+ L + G PS
Sbjct: 217 YSKGYRLSTYATWWVKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVRLGREPST 276
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
+ IAE + M +K+V +A G SL+ + G ++AD+ +
Sbjct: 277 EEIAEEVGMPEKRVTELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKA 331
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ + L++E++ + + L RERE+I L +GL+ LT E++ +R ++RER+RQ+ A
Sbjct: 332 ESFLLREEIDAM-LQGLNPREREVIILRFGLETGHPLTLEEVGRRFNVTRERIRQIETAA 390
Query: 480 LEKLKHAARKKKMEAML 496
L KL++ ++ +K+ L
Sbjct: 391 LRKLRNPSKSRKIRDFL 407
>gi|381162242|ref|ZP_09871472.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
gi|379254147|gb|EHY88073.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
Length = 514
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 212 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVVEEEGEKLSTQMRRDLKWI 270
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 271 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 330
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 331 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 388
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 389 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 440
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 441 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 499
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 500 LRHPSRSQ 507
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 109/298 (36%), Positives = 166/298 (55%), Gaps = 25/298 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPE---LQSILME 252
Y++ + LLT + +L++ I+ G + ER ++L PE L+ I +
Sbjct: 104 YLREIGQVPLLTAEQEKQLAQMIERGQA--------AERKLATLPPDSPEAAKLRRIKEQ 155
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR+K+ +N+RLV+SIA+RY + G + DL+Q G +GLLR IEKFD +KG+K STY
Sbjct: 156 GDEARQKMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDHTKGYKFSTYA 215
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWI+Q +SRAL + SR +RLP HL E L I++A+ +L + G P+ +A +L MS+
Sbjct: 216 TWWIKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSE 275
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
+K+R SL A P GE S +AD + + L+ +
Sbjct: 276 EKLRELRRTAQDPVSL---ATPV-----GEEADSTLADFIPDPHALDADDAAASGMLRQQ 327
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
+ + L ERER ++ L YGL D + T E++ K G++RERVRQ+ + AL KL+H
Sbjct: 328 IAA-ALDQLSERERRVLELRYGLADGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRH 384
>gi|377567675|ref|ZP_09796883.1| RNA polymerase sigma factor SigB [Gordonia terrae NBRC 100016]
gi|377535215|dbj|GAB42048.1| RNA polymerase sigma factor SigB [Gordonia terrae NBRC 100016]
Length = 338
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 106/304 (34%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L K+RL ++ + +L I+ E
Sbjct: 45 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLANKKRLSAA---KKRDLAVIVREGEA 100
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 101 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 160
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 161 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELANESGIPAEKI 220
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L ++ +
Sbjct: 221 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDI-R 271
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+H R +
Sbjct: 272 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRHGDRAE 331
Query: 491 KMEA 494
++ A
Sbjct: 332 RLRA 335
>gi|434405397|ref|YP_007148282.1| RNA polymerase, sigma subunit, RpsC/SigC [Cylindrospermum stagnale
PCC 7417]
gi|428259652|gb|AFZ25602.1| RNA polymerase, sigma subunit, RpsC/SigC [Cylindrospermum stagnale
PCC 7417]
Length = 412
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 96/274 (35%), Positives = 162/274 (59%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRL---KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+ L D K L K R + +++ EL + + A+E ++ +N+RLV+S+A++Y N
Sbjct: 135 GIELPDLKPTLANGKRRWAETAKLTVEELDQVQSQGLQAKEHMIKANLRLVVSVAKKYQN 194
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 195 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 254
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR + + SL+ + +
Sbjct: 255 TEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPAQVREVLLRVPRSVSLETKVGKDKD 314
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L+ +++ L+ L RER++I + +GL D
Sbjct: 315 TELGELLETDCV------TPEEMLMRESLQRDLHNLLD-DLTSRERDVILMRFGLSDGHP 367
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 368 YSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 401
>gi|375090808|ref|ZP_09737120.1| RNA polymerase sigma factor rpoD [Facklamia languida CCUG 37842]
gi|374564970|gb|EHR36249.1| RNA polymerase sigma factor rpoD [Facklamia languida CCUG 37842]
Length = 379
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 92/253 (36%), Positives = 153/253 (60%), Gaps = 14/253 (5%)
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
IL LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 135 ILEGDELAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDHTKGFKF 194
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +
Sbjct: 195 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGREPTPEEIGAEM 254
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW---A 424
++ +KVR+ + + +E SL GE S++ D +E++ +D+ A
Sbjct: 255 DLPTEKVRD-------ILKIAQEPV-SLETPIGEEDDSHLGDF-IEDDGALSPEDFTASA 305
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 483
L E + ++ TL +RE ++RL +GLD + T E + K G++RER+RQ+ AL KL
Sbjct: 306 LLREQLEDVLDTLTDREENVLRLRFGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKL 365
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 366 RHPSRSKQLKDFL 378
>gi|336401293|ref|ZP_08582064.1| hypothetical protein HMPREF0404_01355 [Fusobacterium sp. 21_1A]
gi|336161203|gb|EGN64210.1| hypothetical protein HMPREF0404_01355 [Fusobacterium sp. 21_1A]
Length = 417
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 494 AMLV 497
V
Sbjct: 413 DFKV 416
>gi|229491301|ref|ZP_04385127.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121]
gi|453070914|ref|ZP_21974141.1| RNA polymerase sigma factor SigB [Rhodococcus qingshengii BKS
20-40]
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]
gi|452759997|gb|EME18340.1| RNA polymerase sigma factor SigB [Rhodococcus qingshengii BKS
20-40]
Length = 323
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 110/302 (36%), Positives = 167/302 (55%), Gaps = 18/302 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L +RL + + +L +I+ E
Sbjct: 30 YLNGIGRTALLTAADEVELAKRIEAGLYAS-HVLATGKRLTVA---KKRDLATIVREGQS 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +AE + K+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAEESGIPAHKI 205
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D+ EN G+ L +V
Sbjct: 206 ADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDSEATSAENAVIAGL----LHSDVRS 257
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ + KL+ R +
Sbjct: 258 -VLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKLRVGDRAE 316
Query: 491 KM 492
K+
Sbjct: 317 KL 318
>gi|383645191|ref|ZP_09957597.1| RNA polymerase sigma factor RpoD [Sphingomonas elodea ATCC 31461]
Length = 675
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|428204839|ref|YP_007100465.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428012958|gb|AFY91074.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 324
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 95/301 (31%), Positives = 170/301 (56%), Gaps = 18/301 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----------SSLRISRPE 245
Y++ + LLTH + + K+++ ++L K L ++LG +S ++ +
Sbjct: 18 YLREIGRVPLLTHEQEILFGKQVQRSIALQLVKDSLTKQLGREPSLDEWAKASGKLDNTQ 77
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L + + A+ K+V +N+RLV+SIA++Y ++ DL+Q G IGL RG+EKFD +KG
Sbjct: 78 LTQAIADGESAKRKIVEANLRLVVSIAKKYTKRNLELLDLIQEGTIGLHRGVEKFDPTKG 137
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+++STY YWWIRQ ++RA+ +NSR +RLP H+ E+L I+ + +L + TPS+ +A
Sbjct: 138 YRLSTYAYWWIRQAITRAIAQNSRNIRLPIHVTEKLNKIKKTQRQLSQHLKRTPSISELA 197
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
L ++ +V + E + SL+++ + GE A +P +
Sbjct: 198 AALELTPNQVISYLEVARQPISLEKQVGEDRDTELGEMLQDPAA------SPEEFAIQSS 251
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
L D + +++ L ++++++ L +GL D L+ ++I +R+ SRERVRQ+ AL KL
Sbjct: 252 LSDNLKQVMAAVLTLQQQQVLSLRFGLEDGRALSLKNIGERLNFSRERVRQIQQEALAKL 311
Query: 484 K 484
+
Sbjct: 312 R 312
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 95/287 (33%), Positives = 164/287 (57%), Gaps = 12/287 (4%)
Query: 216 KKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLARE----KLVMSNVRLVMSI 271
+K+ G+S D + +G+ ++ E + C+ E +LV +N+RLV+SI
Sbjct: 124 QKVLEGVSTGDPIREYLKEIGAIALLTPEEEAGLAKRCAEGDEEAGKRLVEANLRLVVSI 183
Query: 272 AQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTL 331
A+RY G DLVQ G IGL++ +EKFD KG+++STY WW++Q ++RAL + +RT+
Sbjct: 184 AKRYTGRGMSFLDLVQEGNIGLMKAVEKFDYEKGYRLSTYATWWVKQAITRALADQARTI 243
Query: 332 RLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE 390
RLP H+ E + IR + L + G PS +AE + M++K+V + G SL+
Sbjct: 244 RLPVHMVEAVNKIRRTQRDLSVQLGRDPSNRELAEAVGMTEKRVEELIQTSGDTVSLE-- 301
Query: 391 AFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 450
+ G + ++ADN ++ ++ L++E++ + + L ERER++I+L +G
Sbjct: 302 --TPVGDEDGSSLGDFVADN-AGDSTEDQAENVLLREEIDSM-LQGLNERERQVIKLRFG 357
Query: 451 LDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
L+ LT E++ ++ ++RER+RQ+ AL KL++ R KK+ L
Sbjct: 358 LENGRPLTLEEVGRQFNVTRERIRQIETAALRKLRNPVRSKKVRDFL 404
>gi|428217892|ref|YP_007102357.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudanabaena sp.
PCC 7367]
gi|427989674|gb|AFY69929.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena sp.
PCC 7367]
Length = 412
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 171/321 (53%), Gaps = 36/321 (11%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG------------- 236
++ ++ Y++ + LL E + L++KI L L+ + L +G
Sbjct: 97 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELEQQREELANEMGLDDPEEVSDSDWA 156
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+ + P + L E A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 157 VKVDMPLPRFRRRLYEGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 216
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 217 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 276
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIA 408
P+ + IA + M+ +K+R ++ SL+ +E L GET +A
Sbjct: 277 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPDDQVA 336
Query: 409 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGL 467
N L++++ ++ TL RER++++L YGLD + T E+I + +
Sbjct: 337 KN-------------LLREDLEN-VLGTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 382
Query: 468 SRERVRQVGLVALEKLKHAAR 488
+RER+RQ+ AL KL+H R
Sbjct: 383 TRERIRQIEAKALRKLRHPNR 403
>gi|374814976|ref|ZP_09718713.1| RNA polymerase sigma factor RpoD [Treponema primitia ZAS-1]
Length = 603
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 149/243 (61%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY+N G DL+Q G IGL++ +EKFD KGFK STY WW
Sbjct: 365 AKDRLTTANLRLVVSIAKRYNNRGLHFFDLIQEGNIGLIKAVEKFDYHKGFKFSTYATWW 424
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R+L + +RT+R+P H+ E++ + R +K L+E G P+ + IAE L + KV
Sbjct: 425 IRQAITRSLSDQARTIRVPVHMIEQINKVSRESKSLLQELGREPTDEEIAERLGWNALKV 484
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
++ + SL+ + L G+ +I D VE NP + L+++V ++
Sbjct: 485 KSVKNVSREPISLETPIGEEDDSLLGD----FIEDKDVE-NPANQTAYAQLQEDVAD-VL 538
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE+E++++ +GLD LT E++ ++RER+RQ+ AL +L+H R +K++
Sbjct: 539 KTLPPREQEVLKMRFGLDDGYSLTLEEVGLYFNITRERIRQIEAKALRRLRHPKRSRKLK 598
Query: 494 AML 496
L
Sbjct: 599 DYL 601
>gi|384147741|ref|YP_005530557.1| RNA polymerase sigma factor SigB [Amycolatopsis mediterranei S699]
gi|340525895|gb|AEK41100.1| RNA polymerase sigma factor SigB [Amycolatopsis mediterranei S699]
Length = 317
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ A+ V L+K+I+ G+ H L E L + R EL +++ + +
Sbjct: 24 YLNGIGKTALLSAADEVELAKRIEAGV-FAQHMLDTGENLTTK---RRTELAALVRDGHV 79
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 80 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 139
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A + K+
Sbjct: 140 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGRDATHEELAAESGIPAHKI 199
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 200 SDLLDHSRDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESAVISGLLQDDLRR-VL 253
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+ +IRL YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 254 ATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLRQGERADRLR 313
Query: 494 A 494
A
Sbjct: 314 A 314
>gi|333991092|ref|YP_004523706.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
gi|333487060|gb|AEF36452.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
Length = 321
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 169/303 (55%), Gaps = 20/303 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++R G + EL +++ +
Sbjct: 28 YLNGIGKTALLNAADEVELAKRIEAGLYAK-HLLETRKRFGEK---RKRELATVVRDGEA 83
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 84 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 143
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K + ++ G + + +A + +K+
Sbjct: 144 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQQLGREATDEELAAESGIPAEKI 203
Query: 375 RNATEAIGKVFSLDREAFPSLNGLP-GETHHSYIADNRVENNPWHGVDDWALKDEVN--- 430
+ E SLD +P G + + D +E++ ++ + + ++
Sbjct: 204 NDLLEHSRDPVSLD---------MPVGSDEEAPLGDF-IEDSEAMSAENAVISELLHTDI 253
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ+ + KL+H R
Sbjct: 254 RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLRHGERA 313
Query: 490 KKM 492
++
Sbjct: 314 DRL 316
>gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545]
gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545]
Length = 587
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 103/312 (33%), Positives = 171/312 (54%), Gaps = 22/312 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL--------------GSS 238
+K Y+K + S LLT + V L+ +I+ + L+ + +L+E +
Sbjct: 256 MKTYLKDIGSVSLLTGEQEVELAMRIQDLVYLEGVREQLEEEAKRRKQTSEVSNFDWAIA 315
Query: 239 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 298
++ EL+ L A+ +++ +N+RLV+SIA+RY N DL+Q G +GL+RG E
Sbjct: 316 ANVTERELKERLDAGKRAKNQMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAE 375
Query: 299 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 357
KFD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + + + +L K G
Sbjct: 376 KFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQLVMKYGRD 435
Query: 358 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 417
P+ + IAE ++M+ +K+ +A SL + S+N T + D+ E +P
Sbjct: 436 PTTEEIAEVMDMTVEKINQIQKASLVPISLSQ----SVNDDDSRTVEETLVDDHAE-HPD 490
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 476
LK+++ ++ TL RER+++RL YG+D T E+I ++RER+RQ+
Sbjct: 491 DATGKVLLKEDLEN-VLNTLSPRERDVLRLRYGMDDGRVKTLEEIGNVFSVTRERIRQIE 549
Query: 477 LVALEKLKHAAR 488
AL KL+ +R
Sbjct: 550 AKALRKLRQPSR 561
>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|421145595|ref|ZP_15605454.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp.
fusiforme ATCC 51190]
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]
gi|395488007|gb|EJG08903.1| RNA polymerase sigma factor rpoD [Fusobacterium nucleatum subsp.
fusiforme ATCC 51190]
Length = 418
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 494 AMLV 497
V
Sbjct: 414 DFKV 417
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 91/260 (35%), Positives = 156/260 (60%), Gaps = 9/260 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R +++ EL+ + + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +
Sbjct: 153 KRRWAEIAKLTVEELEQVQSQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKI 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP+++ +A L M+ +VR + + SL+ + + GE +
Sbjct: 273 AQEKGRTPTLEDLATELEMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLETDCV-- 330
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
P + +L+ +++ L + L RER++I + +GL D + +I + + LSR
Sbjct: 331 ----TPEEMLMRESLQRDLHHL-LSDLTSRERDVILMRFGLADGHPYSLAEIGRALDLSR 385
Query: 470 ERVRQVGLVALEKLKHAARK 489
ERVRQ+ AL+KL+ R+
Sbjct: 386 ERVRQIESKALQKLRQPKRR 405
>gi|428307311|ref|YP_007144136.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428248846|gb|AFZ14626.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 383
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 109/319 (34%), Positives = 171/319 (53%), Gaps = 36/319 (11%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGS---------SLR 240
++ ++ Y++ + LL E + L++KI L L+ +LK +L ++
Sbjct: 72 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLQLERVYEQLKAQLDREPKDSEWALAVE 131
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 132 MPLPQFRHRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 191
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 192 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 251
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWH 418
+ IA + M+ +K+R F P SL G+ S + D +
Sbjct: 252 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD-------FI 295
Query: 419 GVDDWALKDEVNK--------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
D +DEV+K ++ TL RER+++RL YGLD + T E+I + ++R
Sbjct: 296 EADGETPEDEVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 355
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 356 ERIRQIEAKALRKLRHPNR 374
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 87/252 (34%), Positives = 154/252 (61%), Gaps = 16/252 (6%)
Query: 252 ECS--LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
EC +A+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K S
Sbjct: 339 ECKARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFS 398
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE +
Sbjct: 399 TYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQENGREPAPEEIAERMQ 458
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWAL 425
+ KVR KV + +E SL GE S++ D ++ +P V L
Sbjct: 459 LPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKAVISPIEAVIKANL 510
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
++ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+
Sbjct: 511 SEQTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFAVTRERIRQIEAKALRKLR 569
Query: 485 HAARKKKMEAML 496
H +R KK+++ +
Sbjct: 570 HPSRSKKLKSFV 581
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 174/318 (54%), Gaps = 31/318 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-------------- 236
+ ++ Y++ + LL E + L++KI L L+ + + +R+G
Sbjct: 89 DSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPETLWA 148
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++S PE + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 149 EEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 208
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ +L +E G
Sbjct: 209 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKQLSQELG 268
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + ++ +K+R F P SL G+ S + D +E+
Sbjct: 269 RRPTEEEIATRMEITIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 318
Query: 415 ---NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
P V L++++ ++ TL RER++++L YGLD + T E+I + ++RE
Sbjct: 319 EGETPEERVAKVLLREDLES-VLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRE 377
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 378 RIRQIEAKALRKLRHPNR 395
>gi|410659170|ref|YP_006911541.1| RNA polymerase sigma factor RpoD [Dehalobacter sp. DCA]
gi|410662155|ref|YP_006914526.1| RNA polymerase sigma factor RpoD [Dehalobacter sp. CF]
gi|409021525|gb|AFV03556.1| RNA polymerase sigma factor RpoD [Dehalobacter sp. DCA]
gi|409024511|gb|AFV06541.1| RNA polymerase sigma factor RpoD [Dehalobacter sp. CF]
Length = 386
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/288 (35%), Positives = 167/288 (57%), Gaps = 18/288 (6%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQSIL-MECS--LAREKLVMSNVRLVMSIAQ 273
I G+ +DD ++ LKE L + E++ L ME +A+ +L +N+RLV+SIA+
Sbjct: 107 IPEGVGIDDPVRMYLKEIGRVPLLTAEDEIELALKMEAGDEMAKRRLAEANLRLVVSIAK 166
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+
Sbjct: 167 RYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 226
Query: 334 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + LIR + L+E G P+ D A+ + + +++VR ++ + +E
Sbjct: 227 PVHMVETINKLIRVNRQLLQELGRDPTPDETAKVMEIPEERVR-------EILKIAQEPV 279
Query: 393 PSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYY 449
SL GE S++ D + + P LK+++ + ++ TL RE +++RL +
Sbjct: 280 -SLETPIGEEEDSHLGDFIPDEDAPAPSEAASFILLKEQLEE-VLETLTPREEKVLRLRF 337
Query: 450 GLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
GLD T E++ + G++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 338 GLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 385
>gi|393724260|ref|ZP_10344187.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26605]
Length = 676
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 434 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 493
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 494 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 553
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 554 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 605
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 606 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 664
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 665 SRSRKMRSFL 674
>gi|404446700|ref|ZP_11011803.1| RNA polymerase sigma factor SigB [Mycobacterium vaccae ATCC 25954]
gi|403650063|gb|EJZ05350.1| RNA polymerase sigma factor SigB [Mycobacterium vaccae ATCC 25954]
Length = 319
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 166/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTRKRLGEN---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ V+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGI--PVE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IEREVMAKLRNGERADRL 314
>gi|347528800|ref|YP_004835547.1| RNA polymerase sigma factor RpoD [Sphingobium sp. SYK-6]
gi|345137481|dbj|BAK67090.1| RNA polymerase sigma factor RpoD [Sphingobium sp. SYK-6]
Length = 678
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 94/273 (34%), Positives = 161/273 (58%), Gaps = 25/273 (9%)
Query: 236 GSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 288
G+SL PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 417 GTSL----PEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQE 472
Query: 289 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNA 347
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R +
Sbjct: 473 GNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTS 532
Query: 348 KLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 407
+ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S++
Sbjct: 533 RQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSHL 584
Query: 408 ADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISK 463
D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++ +
Sbjct: 585 GDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQ 643
Query: 464 RIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 644 QFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 676
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 145/247 (58%), Gaps = 12/247 (4%)
Query: 254 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 313
A++KLV +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY
Sbjct: 145 EFAKQKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYAT 204
Query: 314 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 372
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P D IA+ +NM+++
Sbjct: 205 WWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPDEIAKEMNMTEE 264
Query: 373 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVN 430
KVR + SL+ GE S++ D + ++L E
Sbjct: 265 KVREIMKIAQDPVSLETPI--------GEEEDSHLGDFIPDEDAPAPAEAAAYSLLKEQI 316
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL +RE+ +++L +GL D T E++ K ++RER+RQ+ AL KL+H +R
Sbjct: 317 EDVLNTLNDREQNVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRS 376
Query: 490 KKMEAML 496
KK+ L
Sbjct: 377 KKLRDFL 383
>gi|223044379|ref|ZP_03614413.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43)
[Staphylococcus capitis SK14]
gi|417907968|ref|ZP_12551735.1| RNA polymerase sigma factor RpoD [Staphylococcus capitis VCU116]
gi|222442248|gb|EEE48359.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43)
[Staphylococcus capitis SK14]
gi|341595055|gb|EGS37733.1| RNA polymerase sigma factor RpoD [Staphylococcus capitis VCU116]
Length = 368
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 170/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL+ E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLSAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 128 ----DEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|403668244|ref|ZP_10933520.1| RNA polymerase sigma factor RpoD [Kurthia sp. JC8E]
Length = 378
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 99/272 (36%), Positives = 159/272 (58%), Gaps = 26/272 (9%)
Query: 241 ISRPELQSILMECSLA----------REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
I R +L S E SLA R++L +N+RLV+SIA+RY G DL+Q G
Sbjct: 116 IGRVDLLSAEQEISLAERIEKGDDEARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGN 175
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 349
+GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR +
Sbjct: 176 MGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 235
Query: 350 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 409
L++ G P+ + I E ++++ +KVR ++ + +E SL GE S++ D
Sbjct: 236 LLQDLGREPTPEEIGEEMDLTPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGD 287
Query: 410 NRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKR 464
+E++ D A LK+++ ++ TL +RE ++RL +GLD T E++ K
Sbjct: 288 F-IEDSEAQSPADHAAYELLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 345
Query: 465 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 346 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 377
>gi|218438398|ref|YP_002376727.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218171126|gb|ACK69859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 295
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 111/312 (35%), Positives = 175/312 (56%), Gaps = 25/312 (8%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISR 243
++ E + N +K Y++ + LL+ + V L+ +++ ++L D KE L
Sbjct: 1 MTKETVDN-VKAYLQEIGRTPLLSSQQEVELATQVQNMMALLD-----KENLT------- 47
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
PE I+ + A+ K++ +N+RLV+SIA++Y G DL+Q G IGL+RG+EKFD S
Sbjct: 48 PEEIKIIQQGKRAKRKMISANLRLVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPS 107
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDR 362
KG+K STY YWWIRQ ++RA+ + SRT+RLP+HL E L ++ +L E G P+ +
Sbjct: 108 KGYKFSTYAYWWIRQAMTRAIADQSRTIRLPSHLTESLNKLKRITRQLTGELGRRPTEEE 167
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 420
IA L +S ++R +A + S SLN + + + +A+ ++ NP V
Sbjct: 168 IATELEISMNELRTIRQADHRTRSY------SLN-MKMDDEQTELAELLADDSANPNEFV 220
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
L V +L + TL R++EII L YGL + + ++ E++ LSRERVRQ+ A
Sbjct: 221 AQIELSSMVEQL-LETLPPRQQEIIALRYGLKNGKQMSLEEVGHHCNLSRERVRQLQNRA 279
Query: 480 LEKLKHAARKKK 491
+ LK A K K
Sbjct: 280 MRTLKFKAFKLK 291
>gi|399065313|ref|ZP_10747879.1| RNA polymerase sigma factor, sigma-70 family [Novosphingobium sp.
AP12]
gi|398029770|gb|EJL23218.1| RNA polymerase sigma factor, sigma-70 family [Novosphingobium sp.
AP12]
Length = 675
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|354617029|ref|ZP_09034545.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
gi|353218616|gb|EHB83339.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
Length = 464
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + ++R+ E G L R +L+ I
Sbjct: 162 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RIRVTEEEGEKLSTQMRRDLKWI 220
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 221 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 280
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 281 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 338
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 339 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 390
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 391 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 449
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 450 LRHPSRSQ 457
>gi|440682434|ref|YP_007157229.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena cylindrica PCC
7122]
gi|428679553|gb|AFZ58319.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena cylindrica PCC
7122]
Length = 416
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 154/247 (62%), Gaps = 9/247 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +K
Sbjct: 166 ELEKIQSQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 225
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +
Sbjct: 226 GYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDL 285
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L+M+ +VR + + SL+ + + GE + + V P +
Sbjct: 286 AIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGE----LLETDSV--TPEEMLMRE 339
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ +++ L+ L RER++I + +GL D + +I + + LSRERVRQ+ AL+K
Sbjct: 340 SLQKDLHNLLD-DLTSRERDVILMRFGLSDGHAYSLAEIGRALDLSRERVRQIESKALQK 398
Query: 483 LKHAARK 489
L+ R+
Sbjct: 399 LRQPKRR 405
>gi|334141892|ref|YP_004535099.1| RNA polymerase primary sigma factor [Novosphingobium sp. PP1Y]
gi|333939923|emb|CCA93281.1| RNA polymerase primary sigma factor [Novosphingobium sp. PP1Y]
Length = 677
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 435 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 494
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 495 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 554
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 555 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 606
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 607 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 665
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 666 SRSRKMRSFL 675
>gi|283780465|ref|YP_003371220.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pirellula staleyi
DSM 6068]
gi|283438918|gb|ADB17360.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi
DSM 6068]
Length = 544
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 94/261 (36%), Positives = 151/261 (57%), Gaps = 8/261 (3%)
Query: 238 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 297
SLR +Q +E A+ +L N+RLV+SIA++Y N G DL+Q G GL+R +
Sbjct: 285 SLRARCVAMQRQYIEYEAAKRQLSSGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAV 344
Query: 298 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGV 356
+K++ +GFK STY WWIRQ ++RA+ + +RT+R+P H+ + L +RN + + L+E G
Sbjct: 345 DKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLSKLRNVQKKLLQELGR 404
Query: 357 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 416
P+ + + +++ ++V+ + SLDR S + GE +I D +NP
Sbjct: 405 EPTTEEVTALVDLPLEEVKRVLDIGRHPVSLDRPVGDSEDSSFGE----FIEDT-ASDNP 459
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 475
+ L++ ++ L + TL REREIIRL YGL D T E++ + ++RERVRQ+
Sbjct: 460 VLCATNGILRERIDGL-LKTLTWREREIIRLRYGLCDGYTYTLEEVGRIFKVTRERVRQI 518
Query: 476 GLVALEKLKHAARKKKMEAML 496
A+ KL+H R K++E L
Sbjct: 519 EAKAVRKLQHPVRSKQLEGFL 539
>gi|453382635|dbj|GAC82930.1| RNA polymerase sigma factor SigB [Gordonia paraffinivorans NBRC
108238]
Length = 340
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 110/320 (34%), Positives = 166/320 (51%), Gaps = 50/320 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L K+RL ++ + +LQ I+ E
Sbjct: 47 YLNGIGRTALLNAEQEVELAKQIEAGL-YAKHLLATKKRLSAA---KKRDLQIIVREGEA 102
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 103 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 162
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG + E G+ +
Sbjct: 163 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELANESGI--PAE 220
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L+ S+ V N EA F D EA + N + HS I
Sbjct: 221 KIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSAENAVIAGLLHSDI-------- 272
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ
Sbjct: 273 ---------------RAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQ 317
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ + KL+ R +++ A
Sbjct: 318 IEREVMGKLRAGERAERLRA 337
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 175/301 (58%), Gaps = 32/301 (10%)
Query: 212 VRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLAREK----------L 260
V L I G+++DD ++ LKE I R L + E LA+ K L
Sbjct: 85 VDLDLTIPEGIAIDDPVRMYLKE-------IGRVPLLTPEEEIELAKRKEEGDEEAKRKL 137
Query: 261 VMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGV 320
+N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K STY WWIRQ +
Sbjct: 138 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWWIRQAI 197
Query: 321 SRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 379
+RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ + +S+ KVR
Sbjct: 198 TRAIADQARTIRIPVHMVETINKLIRVSRNLLQELGREPTPEEIAKEMGISEDKVR---- 253
Query: 380 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVT 436
++ + +E SL GE S++ D + + V++ + L++++++ ++ T
Sbjct: 254 ---EIMKIAQEPV-SLETPIGEEEDSHLGDFVEDPDAKAPVEEASYTLLREQLDE-VLKT 308
Query: 437 LGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 495
L ERE++++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++
Sbjct: 309 LTEREQKVLRLRFGLDDGRARTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSKKLKDF 368
Query: 496 L 496
L
Sbjct: 369 L 369
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 147 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 206
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 207 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPSPEEIGEEMDLLPEKV 266
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 267 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 317
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 318 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 376
Query: 490 KKMEAML 496
K+++ L
Sbjct: 377 KRLKDFL 383
>gi|403384152|ref|ZP_10926209.1| RNA polymerase sigma factor RpoD [Kurthia sp. JC30]
Length = 375
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIGEEMDLTPEKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPADHAAYELLKEQLE 308
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 490 KKMEAML 496
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|392411413|ref|YP_006448020.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfomonile tiedjei DSM
6799]
gi|390624549|gb|AFM25756.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfomonile tiedjei DSM
6799]
Length = 589
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 94/284 (33%), Positives = 168/284 (59%), Gaps = 23/284 (8%)
Query: 226 DHKLRLKERLGSSLRISRPELQSILMECS----LARE---KLVMSNVRLVMSIAQRYDNM 278
++ +R ++L + + L++ LM C LAR+ +LV +N+RLV+SIA++Y N
Sbjct: 314 ENSVRRIQKLRAEAAMDEENLKAALMSCEEGEYLARKAKSELVQANLRLVVSIAKKYTNR 373
Query: 279 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLH 338
G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+
Sbjct: 374 GLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMI 433
Query: 339 ERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNG 397
E + LIR ++ ++E G P+ + IAE + +KVR KV + +E SL
Sbjct: 434 ETINKLIRTSRYLVQEYGREPTPEEIAEKMEFPLEKVR-------KVLKIAKEPI-SLET 485
Query: 398 LPGETHHSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-D 452
GE S++ D +E+ +P V +L ++ K ++ TL RE +++R+ +G+ +
Sbjct: 486 PIGEEEDSHLGDF-IEDKKILSPSDAVVGMSLTEQTRK-VLATLTPREEKVLRMRFGIGE 543
Query: 453 KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ T E++ + ++RER+RQ+ AL+KL+H +R K++ +
Sbjct: 544 RADHTLEEVGQDFDVTRERIRQIEAKALKKLRHPSRSKRLRPFI 587
>gi|381200896|ref|ZP_09908028.1| RNA polymerase sigma factor RpoD [Sphingobium yanoikuyae XLDN2-5]
Length = 679
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 437 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 496
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 497 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 556
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 557 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 608
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 609 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 667
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 668 SRSRKMRSFL 677
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 104/325 (32%), Positives = 176/325 (54%), Gaps = 47/325 (14%)
Query: 176 GSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL 235
G + S ++ + + +K Y+K + S LL+ AE + L+KKI+ G
Sbjct: 84 GDTEDLSAMTSTISDDPVKQYLKEIGSYPLLSVAEEIELAKKIEAG-------------- 129
Query: 236 GSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
++A++ L SN+RLV+SIA+RY G DL+Q G +GL++
Sbjct: 130 -----------------DNMAKQILAESNLRLVVSIAKRYVGRGLSFLDLIQEGNLGLIK 172
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 354
++KFD +KG+K STY WWIRQ ++R++ + SRT+R+P H+ E + R ++ L+E
Sbjct: 173 AVDKFDYNKGYKFSTYATWWIRQAITRSIADQSRTIRIPVHMSEVINKTYRVSRNLLQEL 232
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 414
G PS +A+ +N+ +KVR + SLD GE S++ D +++
Sbjct: 233 GREPSEQELADAMNLPIEKVREILKVSADPISLDTPI--------GEEDDSHLGD-FIKD 283
Query: 415 NPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
+ G +D A L+D+++KL + TL ERE+ ++ L +GL D T E++ K ++R
Sbjct: 284 DTIMGPEDAASYAVLQDQISKL-LDTLTEREQRVLILRFGLQDGRSRTLEEVGKEFNVTR 342
Query: 470 ERVRQVGLVALEKLKHAARKKKMEA 494
ER+RQ+ AL KL+H +R + ++
Sbjct: 343 ERIRQIEAKALRKLRHPSRARMLKG 367
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 170/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL+ E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLSAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 128 ----DEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|296284010|ref|ZP_06862008.1| RNA polymerase sigma factor RpoD [Citromicrobium bathyomarinum
JL354]
Length = 667
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSNLKE 596
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 596
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 176/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E L
Sbjct: 75 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREELIYHLDREPQVSEWA 130
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
+++ + P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 131 NAVDMELPKFKRRLILGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 190
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 191 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 250
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 251 RKPTEEEIATSMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 300
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ +L RER+++RL YGLD + T E+I + ++RE
Sbjct: 301 DGETPEDEVSKNLLREDLES-VLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 359
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 360 RIRQIEAKALRKLRHPNR 377
>gi|425737397|ref|ZP_18855670.1| RNA polymerase sigma factor RpoD [Staphylococcus massiliensis S46]
gi|425482745|gb|EKU49901.1| RNA polymerase sigma factor RpoD [Staphylococcus massiliensis S46]
Length = 369
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 171/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL+ E + L+K+I+ G
Sbjct: 96 INDPVRMYLKEIGRVDLLSAKEEIELAKRIEQG--------------------------- 128
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 129 ----DEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 184
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 185 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 244
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 245 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 295
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 296 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 354
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 355 LRHPSRSKRLKDFM 368
>gi|389815818|ref|ZP_10207066.1| RNA polymerase sigma factor RpoD [Planococcus antarcticus DSM
14505]
gi|388465541|gb|EIM07857.1| RNA polymerase sigma factor RpoD [Planococcus antarcticus DSM
14505]
Length = 384
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 147 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 206
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 207 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLLPEKV 266
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 267 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 317
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 318 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 376
Query: 490 KKMEAML 496
K+++ L
Sbjct: 377 KRLKDFL 383
>gi|383831189|ref|ZP_09986278.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
gi|383463842|gb|EID55932.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
Length = 343
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ H L + L R R EL +++ +
Sbjct: 50 YLNGIGKTALLTADEEVDLAKRIEAGV-FAQHMLDTSDDLP---RERRAELAAVVRDGER 105
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 106 AKTHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 165
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A + + KV
Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAAESGIPETKV 225
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 226 ASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLLQDDLRR-VL 279
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+H R ++
Sbjct: 280 ATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMSKLRHGERADRLR 339
Query: 494 A 494
A
Sbjct: 340 A 340
>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|385828171|ref|YP_005865943.1| 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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 106/316 (33%), Positives = 182/316 (57%), Gaps = 30/316 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKER---------LGSSLRISR 243
++ Y+K + LLTH E V S++++ ++L+ K L E+ + +S+
Sbjct: 11 VRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANLSQ 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ L+ A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RELKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + G + S+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L ++ K+VR+ E + SLD G+ + + + + + + DD
Sbjct: 191 LADELGLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTELIE--LLEDDGLTPDD 240
Query: 423 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+ ALK ++ ++ + L +++E++ L +GL D T I + + +SRERVRQ+
Sbjct: 241 YATHAALKRDLARM-LNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLSISRERVRQIER 299
Query: 478 VALEKLKHAARKKKME 493
AL KL RK+K E
Sbjct: 300 EALAKL----RKRKAE 311
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 184/320 (57%), Gaps = 21/320 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-GSSLRISRPE-- 245
+++ ++ Y+K + LL+ E + L++ ++ G + LK R+ G+S
Sbjct: 123 VEDPVRMYLKEIGKVPLLSADEEIELAQNMEDGAVATEKINVLKGRIDGASEEEKAEIKE 182
Query: 246 ----LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
LQ + + + A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 183 EIKTLQRDVDKGADAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFD 242
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 360
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS
Sbjct: 243 YKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSP 302
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PW 417
+ IA+ +NM ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 303 EEIAKEMNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIKDDNVPVPA 354
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
LK+++ + ++ TL ERE++++ L +GL D T E++ K ++RER+RQ+
Sbjct: 355 DAAAFTLLKEQLEE-VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIE 413
Query: 477 LVALEKLKHAARKKKMEAML 496
AL KL+H +R +K++ L
Sbjct: 414 AKALRKLRHPSRSRKLKDYL 433
>gi|428225120|ref|YP_007109217.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geitlerinema sp.
PCC 7407]
gi|427985021|gb|AFY66165.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geitlerinema sp.
PCC 7407]
Length = 381
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 173/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + L E+L +
Sbjct: 70 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRADLAEQLEREPTDAEWAQKVD 129
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 130 MALPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 189
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 190 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 249
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 250 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 299
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 300 PEDQVSKNLLREDLES-VLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 358
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 359 IEAKALRKLRHPNR 372
>gi|411117176|ref|ZP_11389663.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
gi|410713279|gb|EKQ70780.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
Length = 382
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 176/314 (56%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + L+++L +++
Sbjct: 71 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRESLQQQLDRTPQDAEWANAVN 130
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 131 MTLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 190
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 191 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 250
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 251 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 300
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 301 PEDQVAKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 359
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 360 IEAKALRKLRHPNR 373
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 439 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 498
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 499 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 558
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 559 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 610
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 611 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 669
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 670 SRSRKMRSFL 679
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 154/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 346 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 405
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +++
Sbjct: 406 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMSLPL 465
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 466 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 516
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 517 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 575
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 576 SRAKKLKSFV 585
>gi|406914403|gb|EKD53587.1| hypothetical protein ACD_61C00009G0004 [uncultured bacterium]
Length = 367
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++ L SN+RLV+SIA++Y G DL+Q G GL+R +EK+D +KGFK STY WW
Sbjct: 130 AKDMLTKSNLRLVVSIAKKYMGRGMSFLDLIQEGNKGLIRAVEKYDWTKGFKFSTYATWW 189
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P+ + +AE L + +KV
Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRTQRKLMQDLGREPTDEEVAEELETTPEKV 249
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R + K SL+ + L G+ +I D R + P+ + + + + +
Sbjct: 250 REILKIAQKTTSLETPIGDDEDSLLGD----FIPDER-QATPYEATSRQLMHENLEE-AL 303
Query: 435 VTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+L ERE +++R+ +GLD + LT E++ K G++RER+RQ+ AL KL+H +R++K++
Sbjct: 304 GSLTERESKVLRMRFGLDGSKPLTLEEVGKVFGVTRERIRQIESKALRKLRHPSRRRKLQ 363
Query: 494 AML 496
L
Sbjct: 364 DYL 366
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 181/318 (56%), Gaps = 30/318 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR----ISR 243
L + ++ Y+K + +LLT A+ V L+ KI+ GL E+L SS R ++R
Sbjct: 136 LTGDPVRMYLKEIGKVDLLTAADEVDLAMKIEAGLEA-------AEKLESSDRGEIALTR 188
Query: 244 PELQSI--LMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+++ + + + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 189 ADMRRLSRIEQVGLEAKQALISANLRLVVSIAKRYVGRGMHFLDLIQEGNLGLIRAVEKF 248
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+
Sbjct: 249 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQELGRDPT 308
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---- 415
+ I + MS +VR ++ + +E SL GE S + D +E+
Sbjct: 309 PEEIGAEMEMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDAQAVV 359
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
P L++++ + ++ +L +RER++I L +GL D T E++ + G++RER+RQ
Sbjct: 360 PPDAASFSMLREQLVQ-VLDSLADRERKVIELRFGLNDGHPRTLEEVGRDFGVTRERIRQ 418
Query: 475 VGLVALEKLKHAARKKKM 492
+ L KL+H +R K+
Sbjct: 419 IESKTLAKLRHPSRSSKL 436
>gi|164688099|ref|ZP_02212127.1| hypothetical protein CLOBAR_01744 [Clostridium bartlettii DSM
16795]
gi|164602512|gb|EDQ95977.1| RNA polymerase sigma factor RpoD [Clostridium bartlettii DSM 16795]
Length = 385
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 106/309 (34%), Positives = 178/309 (57%), Gaps = 20/309 (6%)
Query: 199 GVVSEELLTH--AEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ---SILME 252
GV +EL E+ ++ + G+S+DD ++ LKE L E++ +L
Sbjct: 85 GVSDDELKKEDDIEMDKIDLSLPKGISIDDPVRMYLKEIGKIPLLKPHEEIEYAKRMLEG 144
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+++LV +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY
Sbjct: 145 DEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYERGFKFSTYA 204
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ ++MS+
Sbjct: 205 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEEIAKEMDMSE 264
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDE 428
+KVR + SL+ GE S++ D + + + A LKD+
Sbjct: 265 EKVREIMKIAQDPVSLETPI--------GEEEDSHLGDFIPDEDALAPAEAAAYSLLKDQ 316
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +
Sbjct: 317 IEE-VLGSLNEREQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPS 375
Query: 488 RKKKMEAML 496
R KK+ L
Sbjct: 376 RSKKLRDYL 384
>gi|443320707|ref|ZP_21049791.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442789590|gb|ELR99239.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 318
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 181/307 (58%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL---------RISR 243
++ Y+K + LLTH E + +K+++ + L+ K +L+E+ + L ++
Sbjct: 11 VRSYLKEIGRVPLLTHEEEIIYAKRVQKLVELEKCKHQLEEKTKTELSEAEWAKAANVTV 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ + +A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AKLRKDVDAGEVAKRKMIEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ ++ ++KG + ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQIAQQKGRSATIAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+AE L ++ ++VR E + SLD G+ + + + + + + +D
Sbjct: 191 LAEELELTPRQVREYLERARQPLSLDLRV--------GDNNDTELGE--LLEDSGQSPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+A L+ ++++L + L ++RE+I L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATYSSLQFDLDRL-MDDLTPQQREVISLRFGLTDGKPLTLSKIGVLLNISRERVRQIER 299
Query: 478 VALEKLK 484
AL KL+
Sbjct: 300 EALAKLR 306
>gi|418010946|ref|ZP_12650717.1| RNA polymerase sigma factor [Lactobacillus casei Lc-10]
gi|410553525|gb|EKQ27528.1| RNA polymerase sigma factor [Lactobacillus casei Lc-10]
Length = 422
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 150/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 185 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 244
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 245 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 304
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 305 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 355
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H++R
Sbjct: 356 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHSSRS 414
Query: 490 KKMEAML 496
K+++ L
Sbjct: 415 KQLKDFL 421
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 98/322 (30%), Positives = 186/322 (57%), Gaps = 30/322 (9%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG----- 236
+M + + + ++ Y++ + LLTH E ++ K+++ L + + L ++G
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIQYGKQVQFSRILHEVRDSLINQIGREPSL 73
Query: 237 ------SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 290
++L ++ EL + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G
Sbjct: 74 EEWALAANLEVA--ELNDAIADGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGS 131
Query: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 350
IG+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +
Sbjct: 132 IGMQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQ 191
Query: 351 LEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIA 408
L ++ G PS +A+ L+++ K+VR L+R P SL+ G+ + + +
Sbjct: 192 LSQQLGRAPSAAELAQELDLTPKQVRE---------YLERARLPLSLDLRLGDNYDTELG 242
Query: 409 DNRVENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKR 464
+ + +P +++ ++ ++ + ++ L +++E+I+L +G LD + LT I
Sbjct: 243 E--MLEDPGASPEEFVMQSSLSYDLERLMEELTPQQKEVIKLRFGLLDGQALTLAKIGDI 300
Query: 465 IGLSRERVRQVGLVALEKLKHA 486
+ +SRERVRQ+ AL KL+ +
Sbjct: 301 LNISRERVRQIEREALTKLRKS 322
>gi|222053802|ref|YP_002536164.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacter daltonii
FRC-32]
gi|221563091|gb|ACM19063.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter
daltonii FRC-32]
Length = 586
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 154/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 346 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 405
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +++
Sbjct: 406 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMSLPL 465
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 466 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 516
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 517 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 575
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 576 SRAKKLKSFV 585
>gi|427411314|ref|ZP_18901516.1| RNA polymerase sigma factor RpoD [Sphingobium yanoikuyae ATCC
51230]
gi|425710499|gb|EKU73521.1| RNA polymerase sigma factor RpoD [Sphingobium yanoikuyae ATCC
51230]
Length = 679
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 437 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 496
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 497 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 556
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 557 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 608
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 609 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 667
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 668 SRSRKMRSFL 677
>gi|405983613|ref|ZP_11041918.1| RNA polymerase sigma factor RpoD [Slackia piriformis YIT 12062]
gi|404388428|gb|EJZ83510.1| RNA polymerase sigma factor RpoD [Slackia piriformis YIT 12062]
Length = 392
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/315 (33%), Positives = 180/315 (57%), Gaps = 16/315 (5%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + LLT AE + L+ KI+ G++ + +E R R L
Sbjct: 86 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATAELEKAEEEGIELERRERRRLT 145
Query: 248 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 307
+ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KGFK
Sbjct: 146 RVEQVGIDAKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFK 205
Query: 308 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEY 366
STY WWIRQ ++RA+ + SRT+R+P H+ E + L+R + L+E G PS + I E
Sbjct: 206 FSTYATWWIRQAITRAIADQSRTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGEK 265
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDD 422
+ ++ ++VR ++ + +E SL GE S + D +E++ P
Sbjct: 266 MGLTAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAAIVPPDAASF 316
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
L+++++K ++ L ERER++I L +GL D T E++ ++ G++RER+RQ+ L
Sbjct: 317 SMLQEQLSK-VLDGLAERERKVISLRFGLEDGHPHTLEEVGRQFGVTRERIRQIESKTLA 375
Query: 482 KLKHAARKKKMEAML 496
KL+H +R K++ L
Sbjct: 376 KLRHPSRSSKLKDYL 390
>gi|418070721|ref|ZP_12707996.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus R0011]
gi|423078927|ref|ZP_17067603.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus ATCC
21052]
gi|357540141|gb|EHJ24158.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus R0011]
gi|357548830|gb|EHJ30689.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus ATCC
21052]
Length = 416
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>gi|421768689|ref|ZP_16205399.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP2]
gi|421771160|ref|ZP_16207821.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP3]
gi|411185538|gb|EKS52665.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP2]
gi|411186595|gb|EKS53719.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP3]
Length = 416
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>gi|393771724|ref|ZP_10360192.1| RNA polymerase primary sigma factor [Novosphingobium sp. Rr 2-17]
gi|392722735|gb|EIZ80132.1| RNA polymerase primary sigma factor [Novosphingobium sp. Rr 2-17]
Length = 673
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 431 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 490
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 491 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 550
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 551 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 602
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 603 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 661
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 662 SRSRKMRSFL 671
>gi|418474803|ref|ZP_13044260.1| RNA polymerase principal sigma factor [Streptomyces coelicoflavus
ZG0656]
gi|371544573|gb|EHN73276.1| RNA polymerase principal sigma factor [Streptomyces coelicoflavus
ZG0656]
Length = 390
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 104/308 (33%), Positives = 179/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LL+ AE V L+++++ GL ++ +L+ G R++ + ++M
Sbjct: 94 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAEE---KLRRTPGLDDRLALDLDRLVVM- 149
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 150 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 209
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +A +L++
Sbjct: 210 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPREVAAHLDLPA 269
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V G+V L +E SL GE + D + + V+ A L +
Sbjct: 270 ERV-------GEVLRLAQEPV-SLYTPVGEEEDVALGDLIEDGDAASPVESAAFLLLRQH 321
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 322 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAY 381
Query: 489 KKKMEAML 496
++ L
Sbjct: 382 ADQLRGYL 389
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>gi|229552308|ref|ZP_04441033.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
rhamnosus LMS2-1]
gi|385835366|ref|YP_005873140.1| RNA polymerase sigma factor rpoD [Lactobacillus rhamnosus ATCC
8530]
gi|229314290|gb|EEN80263.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
rhamnosus LMS2-1]
gi|355394857|gb|AER64287.1| RNA polymerase sigma factor rpoD [Lactobacillus rhamnosus ATCC
8530]
Length = 416
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 180/308 (58%), Gaps = 16/308 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+ Y++ + LLT AE V L+++++ GL ++ +L L+++ + ++M
Sbjct: 66 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAEE---KLAGHTDLDLQLTLDLDKLVVM- 121
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++G+K STY
Sbjct: 122 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 181
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+V+ +A +L ++
Sbjct: 182 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTVEEVAVHLELTP 241
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--LKDEV 429
++V +V L +E SL+ GE + D + + V+ A L E
Sbjct: 242 ERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLLREH 293
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+ A
Sbjct: 294 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 353
Query: 489 KKKMEAML 496
++ L
Sbjct: 354 ADQLRGYL 361
>gi|407960748|dbj|BAM53988.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
Length = 385
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 152/244 (62%), Gaps = 15/244 (6%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 135 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 194
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 195 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 254
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
AE L M+ ++VR + + SL+ + G+ + + D +E + D+
Sbjct: 255 AEELGMTPEQVREVLTQVPRSVSLELKV--------GQDKDTELMD-LLETDTQSPEDEL 305
Query: 424 ---ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 479
AL++++ + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ A
Sbjct: 306 MREALQNDMQE-ILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKA 364
Query: 480 LEKL 483
L+KL
Sbjct: 365 LQKL 368
>gi|374853415|dbj|BAL56324.1| RNA polymerase primary sigma factor [uncultured candidate division
OP1 bacterium]
gi|374857281|dbj|BAL60134.1| RNA polymerase primary sigma factor [uncultured candidate division
OP1 bacterium]
Length = 334
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/243 (36%), Positives = 146/243 (60%), Gaps = 14/243 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 91 ARDELITANLRLVVSIAKKYMGRGLSFLDLIQEGNLGLMRAVEKFDPTKGFKFSTYATWW 150
Query: 316 IRQGVSRALVENSRTLRLPNHLHERL-GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + SRT+R+P H+ E + L R K ++E G P ++ ++ L + Q+K+
Sbjct: 151 IRQAITRAIADQSRTIRIPVHMIETVRELQRLKKEHVQEHGAAPDLEALSSELGIPQEKI 210
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ SL+R GE + D ++ +P L +E+++
Sbjct: 211 KQVENVSQYTTSLERPI--------GEDEEDTLGDFIEDKDAPSPTKETYRMFLVEELDR 262
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
+ L +RE+EI++L YGL D T +D+++ ++RERVRQ+ + ALEKLKH RK+
Sbjct: 263 -ALNQLTDREKEILKLRYGLEDGHPRTLKDVARVFNITRERVRQIEIKALEKLKHPTRKE 321
Query: 491 KME 493
+++
Sbjct: 322 ELQ 324
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 184/320 (57%), Gaps = 21/320 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-GSSLRISRPE-- 245
+++ ++ Y+K + LL+ E + L++ ++ G + LK R+ G+S
Sbjct: 107 VEDPVRMYLKEIGKVPLLSADEEIELAQNMEDGAVATEKINVLKGRIDGASEEEKAEIKE 166
Query: 246 ----LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
LQ + + + A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 167 EIKTLQRDVDKGADAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFD 226
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 360
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS
Sbjct: 227 YKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSP 286
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PW 417
+ IA+ +NM ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 287 EEIAKEMNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIKDDNVPVPA 338
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 476
LK+++ + ++ TL ERE++++ L +GL D T E++ K ++RER+RQ+
Sbjct: 339 DAAAFTLLKEQLEE-VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIE 397
Query: 477 LVALEKLKHAARKKKMEAML 496
AL KL+H +R +K++ L
Sbjct: 398 AKALRKLRHPSRSRKLKDYL 417
>gi|433647324|ref|YP_007292326.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
smegmatis JS623]
gi|433297101|gb|AGB22921.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
smegmatis JS623]
Length = 319
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 166/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAA-HLLETRKRLGEN---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + EE G+ +
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAEESGI--PAE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IEREVMAKLRNGERADRL 314
>gi|434400128|ref|YP_007134132.1| RNA polymerase, sigma subunit, RpsC/SigC [Stanieria cyanosphaera
PCC 7437]
gi|428271225|gb|AFZ37166.1| RNA polymerase, sigma subunit, RpsC/SigC [Stanieria cyanosphaera
PCC 7437]
Length = 416
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/260 (35%), Positives = 156/260 (60%), Gaps = 9/260 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R + S EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +
Sbjct: 153 KHRWAEVVNCSVKELERIQRDGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKI 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP ++ +A+ L+M+ ++R + + SL+ + + G+ + A
Sbjct: 273 SQEKGHTPRIEDLAQELDMTAGQIREVLLRVPRSVSLEIKVGKEKDTELGDLLETESA-- 330
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSR 469
+P + +L+ ++ L + L RERE+I++ +G E + +I + + LSR
Sbjct: 331 ----SPEETLMRESLQKDLQYL-LSELTSREREVIQMRFGFGGEKPFSLAEIGRCLELSR 385
Query: 470 ERVRQVGLVALEKLKHAARK 489
ERVRQ+ AL+KL+ R+
Sbjct: 386 ERVRQIEAKALQKLRQPRRR 405
>gi|414160927|ref|ZP_11417190.1| RNA polymerase sigma factor rpoD [Staphylococcus simulans
ACS-120-V-Sch1]
gi|410876606|gb|EKS24504.1| RNA polymerase sigma factor rpoD [Staphylococcus simulans
ACS-120-V-Sch1]
Length = 369
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 168/311 (54%), Gaps = 41/311 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL E + L+K+I+ G
Sbjct: 96 INDPVRMYLKEIGRVDLLNAQEEIELAKRIEQG--------------------------- 128
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 129 ----DEVAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 184
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 185 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 244
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALK 426
++ +KVR + + SL+ + G ++H +I D V++ H + L
Sbjct: 245 DLPPEKVREILKIAQEPVSLE-----TPIGEEDDSHLGDFIEDQEVQSPSDHAA--YELL 297
Query: 427 DEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
E + ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H
Sbjct: 298 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRH 357
Query: 486 AARKKKMEAML 496
+R K+++ +
Sbjct: 358 PSRSKRLKDFM 368
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 172/298 (57%), Gaps = 18/298 (6%)
Query: 206 LTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMEC--SLAREKLV 261
+ E V + + G++LDD ++ LKE L + E++ + ME + AR +L
Sbjct: 89 MEQEEAVEIDLSVPEGVALDDPVRMYLKEIGRVPLLTAEEEVELARRMEAGDASARHRLE 148
Query: 262 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 321
+N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD SKG+K STY WWIRQ ++
Sbjct: 149 EANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAIT 208
Query: 322 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 380
RAL + +RT+R+P H+ E + L+R ++ L+E G + + IA+ + +S +VR
Sbjct: 209 RALADQARTIRIPVHMVETINKLVRVSRSLLQELGRDATAEEIAKEMGLSVVRVR----- 263
Query: 381 IGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTL 437
++ + +E SL GE S++ D + +P LK+++++ ++ TL
Sbjct: 264 --EIMKIAQEPV-SLETPVGEEEDSHLGDFIEDEAALDPADAASMMLLKEQISE-VLKTL 319
Query: 438 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
RE E++RL +GL D T E++ + G++RER+RQ+ AL KL+H R +K++
Sbjct: 320 APREAEVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPVRLRKLQG 377
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/335 (31%), Positives = 180/335 (53%), Gaps = 52/335 (15%)
Query: 174 QNGSKQLRSMISPEL-------IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDD 226
+N SKQ +++ +L I + ++ Y+K + LLT AE V L+ KI+ G D
Sbjct: 73 KNASKQEKTVQQEDLSAPTGVKINDPVRMYLKEIGRVPLLTAAEEVELALKIEEG----D 128
Query: 227 HKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
+ A+++L +N+RLV+SIA+RY G DL+
Sbjct: 129 QE---------------------------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLI 161
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR
Sbjct: 162 QEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 221
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
+ L++ G P+ + I +++S +KVR ++ + +E SL GE S
Sbjct: 222 IQRQLLQDLGREPTPEEIGAEMDLSTEKVR-------EILKIAQEPV-SLETPIGEEDDS 273
Query: 406 YIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDI 461
++ D ++ +P LK+++ ++ TL +RE ++RL +G+D T E++
Sbjct: 274 HLGDFIEDQDATSPAEHAAYELLKEQLED-VLDTLTDREENVLRLRFGIDDGRTRTLEEV 332
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 333 GKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 109/310 (35%), Positives = 177/310 (57%), Gaps = 19/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V L+K+I+ GL +H L+ E+ + + +R EL ++ +
Sbjct: 317 VKDYLKQIGKVALLNAEQEVNLAKRIEAGL-YAEHLLKT-EQDSMTPKHAR-ELHWVVQD 373
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 374 GVNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 433
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A L+M+
Sbjct: 434 TWWIRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTP 493
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 494 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFVMLQE 544
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + YGL D T +DI R G++RER+RQ+ + KL+H
Sbjct: 545 QLQR-VLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMSKLRHP 603
Query: 487 ARKKKMEAML 496
AR + + L
Sbjct: 604 ARSQSLRDYL 613
>gi|434391486|ref|YP_007126433.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
gi|428263327|gb|AFZ29273.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
Length = 384
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 175/316 (55%), Gaps = 22/316 (6%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL---------KERLGSSLRISRPE 245
+ K + LL E V L++++K + ++ + RL K + + L +S +
Sbjct: 76 AFFKEMARYPLLKPEEEVELARRVKFIVEFEEIQQRLQAEIKRQPNKAEVATLLGMSERQ 135
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 136 LEHRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRAAEKFDPDKG 195
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L+++ PS +A
Sbjct: 196 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQQLQRNPSEVELA 255
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVD 421
++L +S + +R ++ L R++ SLN G+ + + D + +P +
Sbjct: 256 QFLEISAEHLR-------QLLQLRRKSL-SLNHRVGKEEDTELVDLLEDEDSQSPEQQMS 307
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 480
+ ++ E+ ++ L RE+++I L YGL E T E++ LSRERVRQ+ A+
Sbjct: 308 ETMMRQEIWDVLGDVLTPREKDVISLRYGLITSEPCTLEEVGSIFNLSRERVRQIQSKAM 367
Query: 481 EKLKHAARKKKMEAML 496
KL+ K+++ L
Sbjct: 368 RKLRRPQIAKRLKGWL 383
>gi|427709274|ref|YP_007051651.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427361779|gb|AFY44501.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 377
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 177/314 (56%), Gaps = 16/314 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPE 245
+ K + LL E V L+++++ + + + L+E+LG + L ++ +
Sbjct: 69 AFFKEMARYPLLKADEEVELARRVRFLEEVREIQAALQEQLGQQPTKVQVAAQLDLTEKQ 128
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 129 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 188
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K G PS +A
Sbjct: 189 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLGHNPSEAEMA 248
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 249 AFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 303
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 304 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 363
Query: 484 KHAARKKKMEAMLV 497
+ K+++ L+
Sbjct: 364 RRPHIAKRLKGWLI 377
>gi|395493362|ref|ZP_10424941.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26617]
Length = 675
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|379029019|dbj|BAL66752.1| RNA polymerase sigma factor [Mycobacterium tuberculosis str. Erdman
= ATCC 35801]
Length = 297
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/321 (33%), Positives = 166/321 (51%), Gaps = 50/321 (15%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L +++ +
Sbjct: 1 MRVYLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLAAVVRD 56
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY
Sbjct: 57 GEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYA 116
Query: 313 YWWIRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTP 358
WWIRQ ++R + + SRT+RLP HL H+ LG + E G+
Sbjct: 117 TWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREATDEELAAESGI-- 174
Query: 359 SVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 412
+D+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 175 PIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI----- 229
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 471
+ ++ TL ERE ++IRL +GLD + T + I K GLSRER
Sbjct: 230 ------------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRER 271
Query: 472 VRQVGLVALEKLKHAARKKKM 492
VRQ+ + KL+H R ++
Sbjct: 272 VRQIERDVMSKLRHGERADRL 292
>gi|359397321|ref|ZP_09190352.1| RNA polymerase primary sigma factor [Novosphingobium
pentaromativorans US6-1]
gi|357601275|gb|EHJ62963.1| RNA polymerase primary sigma factor [Novosphingobium
pentaromativorans US6-1]
Length = 675
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|444432030|ref|ZP_21227190.1| RNA polymerase sigma factor SigB [Gordonia soli NBRC 108243]
gi|443887204|dbj|GAC68911.1| RNA polymerase sigma factor SigB [Gordonia soli NBRC 108243]
Length = 340
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/304 (35%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+TGL H L K+RL ++ + +L I+ E
Sbjct: 47 YLNGIGRTALLNAEQEVELAKQIETGLYAK-HVLATKKRLSAT---KKRDLAQIVREGEH 102
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 103 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 162
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 163 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELANESGIPAEKI 222
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L +V +
Sbjct: 223 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHTDV-R 273
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+ R +
Sbjct: 274 SVLSTLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRQGDRAE 333
Query: 491 KMEA 494
++ A
Sbjct: 334 RLRA 337
>gi|393721570|ref|ZP_10341497.1| RNA polymerase sigma factor RpoD [Sphingomonas echinoides ATCC
14820]
Length = 675
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|441513649|ref|ZP_20995477.1| putative RNA polymerase sigma factor [Gordonia amicalis NBRC
100051]
gi|441451595|dbj|GAC53438.1| putative RNA polymerase sigma factor [Gordonia amicalis NBRC
100051]
Length = 338
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 168/304 (55%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L K+RL ++ + +L +I+ E
Sbjct: 45 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLATKKRLSAT---KKRDLATIVREGEA 100
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 101 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 160
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 161 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELASESGIPAEKI 220
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L ++ +
Sbjct: 221 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDAEATSAENAVIAGL----LHSDI-R 271
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+ R +
Sbjct: 272 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLRAGDRAE 331
Query: 491 KMEA 494
++ A
Sbjct: 332 RLRA 335
>gi|392416004|ref|YP_006452609.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
chubuense NBB4]
gi|390615780|gb|AFM16930.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
chubuense NBB4]
Length = 319
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 166/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L+ ++RLG + + +L +++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAR-HLLQTRKRLGDN---RKRDLAAVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ V+
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PVE 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KITDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IEREVMAKLRNGERADRL 314
>gi|390166104|ref|ZP_10218371.1| RNA polymerase sigma factor RpoD [Sphingobium indicum B90A]
gi|389591055|gb|EIM69036.1| RNA polymerase sigma factor RpoD [Sphingobium indicum B90A]
Length = 681
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 439 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 498
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 499 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 558
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 559 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 610
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 611 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 669
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 670 SRSRKMRSFL 679
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 168/311 (54%), Gaps = 41/311 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL E + L+K+I+ G
Sbjct: 96 INDPVRMYLKEIGRVDLLNAQEEIELAKRIEQG--------------------------- 128
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 129 ----DEVAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 184
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 185 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 244
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALK 426
++ +KVR + + SL+ + G ++H +I D V++ H + L
Sbjct: 245 DLPPEKVREILKIAQEPVSLE-----TPIGEEDDSHLGDFIEDQEVQSPSDHAA--YELL 297
Query: 427 DEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
E + ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H
Sbjct: 298 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRH 357
Query: 486 AARKKKMEAML 496
+R K+++ +
Sbjct: 358 PSRSKRLKDFM 368
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 143/238 (60%), Gaps = 14/238 (5%)
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
L+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD KGFK STY WWIRQ
Sbjct: 179 LIEANLRLVVSIAKKYIGRGLSFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQA 238
Query: 320 VSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 378
++RA+ + +RT+R+P H+ E + LIR ++ +++ G P+++ IA+ L + +KV +
Sbjct: 239 ITRAIADQARTIRIPVHMVETINKLIRVSRQLVQQLGREPTIEEIAQSLGLPPEKVEDIQ 298
Query: 379 EAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIV 435
+ SL+ GE S + D ++ NP L++++ ++ +
Sbjct: 299 RIAQEPVSLETPI--------GEEEDSQLGDFLEDKESPNPEDATAGQLLREQLEEM-LG 349
Query: 436 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
L ERERE++RL +GL D T E++ KR ++RER+RQ+ AL KL+H +R K++
Sbjct: 350 ELTEREREVLRLRFGLEDGHAHTLEEVGKRFNVTRERIRQIEAKALRKLRHPSRSKRL 407
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/290 (36%), Positives = 169/290 (58%), Gaps = 26/290 (8%)
Query: 220 TGLSLDDH-KLRLKERLGSSLRISRPELQSILMECS-----LAREKLVMSNVRLVMSIAQ 273
TG+ DD + LKE +G+ +S PE + L S LAR++LV +N+RLV+SIA+
Sbjct: 119 TGIETDDPVRFYLKE-IGTIPLLS-PEEEKELARRSKEGDPLARQRLVEANLRLVVSIAK 176
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
RY G + DL+Q G +GL++G+EKF+ KGFK+STY WWIRQG++RAL + SRT+R+
Sbjct: 177 RYTGRGMSILDLIQEGNLGLMKGVEKFEPDKGFKLSTYATWWIRQGITRALADQSRTIRV 236
Query: 334 PNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + + + RL E G PS +A LNM+++K++ LD
Sbjct: 237 PVHMVESINKVTRTQRRLTLELGYEPSPKELAASLNMTEEKLKEI---------LDVSKQ 287
Query: 393 P-SLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRL 447
P SL G+ S ++AD ++ +P + L++E++KL + L +RER+++
Sbjct: 288 PTSLETPVGDEEDSNLSDFVADEKM-ISPEQNAANVMLREEIDKL-LENLKDRERDVLIH 345
Query: 448 YYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+GL +E T E++ + G++RERVRQ+ AL+K+ K + L
Sbjct: 346 RFGLHGEESHTLEEVGQMFGVTRERVRQIEAKALKKISLPKYKNALAGFL 395
>gi|405979920|ref|ZP_11038261.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
gi|404391295|gb|EJZ86359.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
Length = 619
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/302 (33%), Positives = 172/302 (56%), Gaps = 19/302 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V L+++I+ GL + +LK S R EL + +
Sbjct: 322 VKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNEADSMTAKERRELHFMASD 378
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K STY
Sbjct: 379 GQLAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYA 438
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ + +A+ L+M+
Sbjct: 439 TWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTP 498
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 499 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAIVPADAVSFTLLQE 549
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL+H
Sbjct: 550 QLHN-VLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 608
Query: 487 AR 488
+R
Sbjct: 609 SR 610
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 96/275 (34%), Positives = 163/275 (59%), Gaps = 17/275 (6%)
Query: 230 RLKERLGSSLRISRPELQSILM---ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
+++E+ G+S R L+ I E A+++L+ +N+RLV+SIA+RY N G DL+
Sbjct: 291 QMEEQYGASAAELRRTLEIITQAHQEAETAKKELIEANLRLVVSIAKRYTNRGLQFLDLI 350
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G IGL++ ++KF+ +G+K STY WW+RQ ++RA+ + +RT+R+P H+ E + LIR
Sbjct: 351 QEGNIGLMKAVDKFEYRRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETINKLIR 410
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
++ ++E G PS + +A+ L + KVR KV + +E SL GE S
Sbjct: 411 TSRQMVQELGREPSNEELAKRLQLPVSKVR-------KVLRVAQEPI-SLETPIGEEEES 462
Query: 406 YIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDI 461
++ D V+ N P V + L+++ + ++ TL RE +II++ +GL D T E++
Sbjct: 463 HLGDFIVDQNGISPSDAVINLNLREQTAQ-VLKTLTPREEKIIKMRFGLEDGSEHTLEEV 521
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+ ++RER+RQ+ AL KL+H +R ++ A L
Sbjct: 522 GQNFAVTRERIRQIEAKALRKLRHPSRSHRLRAFL 556
>gi|3062909|dbj|BAA25730.1| SigA [Bacillus sp.]
Length = 372
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDVGREPSPEEVAEEMDLTPEKV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDALAPSDAAAYELLKEQLE 305
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 306 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 364
Query: 490 KKMEAML 496
K+++ L
Sbjct: 365 KRLKDFL 371
>gi|427709662|ref|YP_007052039.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427362167|gb|AFY44889.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 332
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 90/231 (38%), Positives = 140/231 (60%), Gaps = 9/231 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+++ +N+RLV+SIA++Y D DL+Q G +GL RG+EKFD ++G+K STY YWW
Sbjct: 97 AKEQMIRANLRLVVSIAKKYQRRNLDFLDLIQEGSLGLERGVEKFDPTRGYKFSTYAYWW 156
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ E RT+RLP HL E+L I+ + L +K G TPS IA L++ K++
Sbjct: 157 IRQAITRAIAEQGRTIRLPIHLTEKLNKIKRTQRELAQKLGHTPSTTEIAAELSLDPKEI 216
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R+ + SL+ P + H + D+ + +P D L+ ++ L +
Sbjct: 217 RDYLLLARQPLSLELRVGPERDT----ELHDMLEDDGL--SPESYADQSFLQQNIHDL-L 269
Query: 435 VTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVALEKLK 484
L ++REI+ L +GL E L+ +I +R+G+SRERVRQ+ L AL L+
Sbjct: 270 SKLTAQQREILTLRFGLTNENTLSLSEIGQRMGISRERVRQLELQALMTLR 320
>gi|404253692|ref|ZP_10957660.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26621]
Length = 675
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|383823563|ref|ZP_09978753.1| RNA polymerase sigma factor SigB [Mycobacterium xenopi RIVM700367]
gi|383338842|gb|EID17201.1| RNA polymerase sigma factor SigB [Mycobacterium xenopi RIVM700367]
Length = 319
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL + L ++RLG + + EL ++ +
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-YLLETRKRLGEN---RKRELAMVVRDGEA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH+ LG + EE G+ +D
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQNLGREATDEELAEESGI--PID 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAASAENTVIAELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE++++RL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RSVLATLDEREQQVVRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL+H R ++
Sbjct: 297 IEREVMAKLRHGERADRL 314
>gi|427733998|ref|YP_007053542.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427369039|gb|AFY52995.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 322
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 98/323 (30%), Positives = 180/323 (55%), Gaps = 32/323 (9%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL-- 239
+M + + ++ ++ Y++ + LLTH E + K++ L LKE L +
Sbjct: 4 AMKTAQTPKDLVRTYLREIGRVPLLTHEEEILFGKQVHRATVLQS----LKESLTNEFNR 59
Query: 240 -----------RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 288
++ +L+ + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q
Sbjct: 60 QPTLDEWAERAKLEPQDLEEAIEKGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQE 119
Query: 289 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK 348
G IG+ RG+EKFD SKG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+
Sbjct: 120 GSIGMQRGVEKFDPSKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQ 179
Query: 349 LRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 407
+L ++ G ++ +A+ L+++ K+VR E SLD G+ + + +
Sbjct: 180 RQLSQRLGRAATISELAQELDLTPKQVREYLEKARVPLSLDLRL--------GDNYDTEL 231
Query: 408 ADNRVENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISK 463
+ + +P +D+ ++ ++ + +I L ++R++I L +GL D + +T I +
Sbjct: 232 GE--MLEDPNASPEDFVMQSSLSYELESLIADLTPQQRQVITLRFGLNDGKAMTLVKIGE 289
Query: 464 RIGLSRERVRQVGLVALEKLKHA 486
++ +SRERVRQ+ AL KL+ A
Sbjct: 290 QLNISRERVRQIEREALNKLRKA 312
>gi|375101508|ref|ZP_09747771.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
gi|374662240|gb|EHR62118.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
Length = 343
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT E V L+K+I+ G+ H L L + R EL +I+ +
Sbjct: 50 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTSGDLSAE---RRGELAAIVRDGER 105
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 106 AKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGFKFSTYATWW 165
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A +++ KV
Sbjct: 166 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAAESGIAETKV 225
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 226 ASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLLQDDLRR-VL 279
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+H R ++
Sbjct: 280 ATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLRHGERADRLR 339
Query: 494 A 494
A
Sbjct: 340 A 340
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 172/298 (57%), Gaps = 18/298 (6%)
Query: 206 LTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMEC--SLAREKLV 261
+ E V + + G++LDD ++ LKE L + E++ + ME + AR +L
Sbjct: 89 MEQEEAVEIDLSVPEGVALDDPVRMYLKEIGRVPLLTAEEEVELARRMEAGDASARHRLE 148
Query: 262 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 321
+N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD SKG+K STY WWIRQ ++
Sbjct: 149 EANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAIT 208
Query: 322 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 380
RAL + +RT+R+P H+ E + L+R ++ L+E G + + IA+ + +S +VR
Sbjct: 209 RALADQARTIRIPVHMVETINKLVRVSRSLLQELGRDATAEEIAKEMGLSVVRVR----- 263
Query: 381 IGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTL 437
++ + +E SL GE S++ D + +P LK+++++ ++ TL
Sbjct: 264 --EIMKIAQEPV-SLETPVGEEEDSHLGDFIEDEAALDPADAASMMLLKEQISE-VLKTL 319
Query: 438 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
RE E++RL +GL D T E++ + G++RER+RQ+ AL KL+H R +K++
Sbjct: 320 APREAEVLRLRFGLEDGRSRTLEEVGQSFGVTRERIRQIEAKALRKLRHPVRLRKLQG 377
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/303 (32%), Positives = 172/303 (56%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LL A+ V LSK+++ GL +HKL E L LR +L ++ +
Sbjct: 132 YLREIGKVPLLNAAQEVELSKRVEAGL-FAEHKLETDEGLAEDLR---RDLGLLVTDGQA 187
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++LV +N+RLV+S+A++Y G + DLVQ G +GL+R +EKFD +KG+K STY WW
Sbjct: 188 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 247
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ + RAL + +RT+R+P H+ E++ I + +L G P+ + +A L+M ++V
Sbjct: 248 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELAFELDMPIEQV 307
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ ++ D + + G G++ ++ +P A++DE++ ++
Sbjct: 308 VEL-----RRYAQDTVSLETSVGDDGDSVLGDFIEDSDATSPADAASYGAMQDEIDN-VL 361
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE++RL +GL D + T ++ R+GL+RER+RQ+ L +L+ A ++
Sbjct: 362 GALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLR 421
Query: 494 AML 496
L
Sbjct: 422 EFL 424
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 109/310 (35%), Positives = 177/310 (57%), Gaps = 19/310 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
+K Y+K + LL + V L+K+I+ GL +H L+ E+ + + +R EL ++ +
Sbjct: 317 VKDYLKQIGKVALLNAEQEVNLAKRIEAGL-YAEHLLKT-EQDSMTPKHAR-ELHWVVQD 373
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD SKG+K STY
Sbjct: 374 GVNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYA 433
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D +A L+M+
Sbjct: 434 TWWIRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDELARELDMTP 493
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKD 427
+KV +V RE SL+ GE S D +E++ P V L++
Sbjct: 494 EKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFVMLQE 544
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ + ++ TL ERE +I + YGL D T +DI R G++RER+RQ+ + KL+H
Sbjct: 545 QLQR-VLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIESKTMSKLRHP 603
Query: 487 ARKKKMEAML 496
AR + + L
Sbjct: 604 ARSQSLRDYL 613
>gi|366085904|ref|ZP_09452389.1| RNA polymerase sigma factor RpoD [Lactobacillus zeae KCTC 3804]
Length = 416
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 179 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 238
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 239 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 298
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 299 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 349
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 350 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 408
Query: 490 KKMEAML 496
K+++ L
Sbjct: 409 KQLKDFL 415
>gi|417749572|ref|ZP_12397964.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium
subsp. paratuberculosis S397]
gi|336458794|gb|EGO37751.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium
subsp. paratuberculosis S397]
Length = 319
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 166/318 (52%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ + LL A V L+K+I+ GL + H L ++RLG + + +L++++ +
Sbjct: 26 YLNGIGKKALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLEAVVRDGQA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PID 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IERDVMSKLRNGERADRL 314
>gi|15613939|ref|NP_242242.1| RNA polymerase sigma factor RpoD [Bacillus halodurans C-125]
gi|12643264|sp|O66381.2|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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDALAPSDAAAYELLKEQLE 305
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 306 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 364
Query: 490 KKMEAML 496
K+++ L
Sbjct: 365 KRLKDFL 371
>gi|406984762|gb|EKE05675.1| hypothetical protein ACD_19C00182G0003 [uncultured bacterium]
Length = 359
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D KGFK STY WW
Sbjct: 122 AKDKLTESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRKGFKFSTYATWW 181
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L R ++ ++E G P+ + I + ++ +V
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLYRISRRLMQELGREPTPEEIGAEVELTADRV 241
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++F + +E SL GE S + D + + VD + LKD +++
Sbjct: 242 R-------EIFKIAQET-TSLEAPVGEDQESILGDFIPDESQLSPVDQASKQLLKDHLDE 293
Query: 432 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE ++++L +GL+ + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLGTLTEREAKVLKLRFGLEGTKQMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 491 KMEAML 496
K++ L
Sbjct: 353 KLQDYL 358
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/247 (35%), Positives = 151/247 (61%), Gaps = 15/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 136 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +++ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 255
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D ++N + A LK+++++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDDNATSPAEHTAYALLKEQLDE 307
Query: 432 LIIVTLGEREREIIRLYYGLDK--ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ L +RE ++RL +GLDK E T E + + G++RER+RQ+ AL KL+H +R
Sbjct: 308 -VLEQLTDREENVLRLRFGLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 490 KKMEAML 496
K+++ L
Sbjct: 367 KQLKDFL 373
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/298 (36%), Positives = 165/298 (55%), Gaps = 25/298 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPE---LQSILME 252
Y++ + LLT + RL++ I+ G ER ++L PE L+ + +
Sbjct: 104 YLREIGQVPLLTAEQEKRLAQLIEQGQE--------AERKLATLPPDSPEAARLKQLKAK 155
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR+++ +N+RLV+SIA+RY + G + DL+Q G +GLLR IEKFD +KG+K STY
Sbjct: 156 GEEARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKFDYTKGYKFSTYA 215
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWI+Q +SRAL + SR +RLP HL E L I++A+ +L + G P+ +A +L MS+
Sbjct: 216 TWWIKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQSLGREPTDTELANHLGMSE 275
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
+K+R SL A P GE S +AD + + L+ +
Sbjct: 276 EKLRELRRTAQDPVSL---ATPV-----GEEADSTLADFIPDPHALDADDAAASGMLRQQ 327
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
+ + L ERER ++ L YGL D + T E++ K G++RERVRQ+ + AL KL+H
Sbjct: 328 ITA-ALDQLSERERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRH 384
>gi|326791438|ref|YP_004309259.1| RpoD subfamily RNA polymerase sigma-70 subunit [Clostridium
lentocellum DSM 5427]
gi|326542202|gb|ADZ84061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
lentocellum DSM 5427]
Length = 363
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 185
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+E G P + IA+ ++M KV
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLMRVSRQLLQELGRDPQPEEIAKRMDMPVSKV 245
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + + P LK+++ +
Sbjct: 246 R-------EIMKISQEPV-SLETPIGEEEDSHLGDFIPDEDIPVPAEAAAFTLLKEQLIE 297
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 298 -VLDTLTEREQKVLRLRFGLDDGRARTLEEVGKEFSVTRERIRQIEAKALRKLRHPSRSK 356
Query: 491 KMEAML 496
K++ L
Sbjct: 357 KLKDYL 362
>gi|158334991|ref|YP_001516163.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|359457419|ref|ZP_09245982.1| RNA polymerase sigma-70 factor [Acaryochloris sp. CCMEE 5410]
gi|158305232|gb|ABW26849.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 371
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 176/322 (54%), Gaps = 42/322 (13%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL--RISR-PEL 246
++ ++ Y++ + LL E + L++KI L L ER+ L R+ R P+L
Sbjct: 60 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLEL--------ERIYDDLFDRLEREPQL 111
Query: 247 QSILMECSL--------------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
Q +E + A++K+V SN+RLV+SIA++Y N G DL+Q G +G
Sbjct: 112 QEWALEVDMPLNRFRHRLHAGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 171
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRL 351
L+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL
Sbjct: 172 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLS 231
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADN 410
+E G P+ + IA + M+ +K+R F P SL G+ S + D
Sbjct: 232 QEMGRKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF 282
Query: 411 RVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIG 466
+E++ P V L++++ + ++ TL RER++++L YGLD + T E+I +
Sbjct: 283 -IESDGETPEDQVSKSLLREDL-ETVLDTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFN 340
Query: 467 LSRERVRQVGLVALEKLKHAAR 488
++RER+RQ+ AL KL+H R
Sbjct: 341 VTRERIRQIEAKALRKLRHPNR 362
>gi|407647092|ref|YP_006810851.1| RNA polymerase sigma factor SigB [Nocardia brasiliensis ATCC
700358]
gi|407309976|gb|AFU03877.1| RNA polymerase sigma factor SigB [Nocardia brasiliensis ATCC
700358]
Length = 322
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 165/321 (51%), Gaps = 52/321 (16%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L +RL ++ + +L I+ E
Sbjct: 29 YLNGIGRTALLTAADEVELAKRIEAGLYAQ-HLLETGKRLSAT---RKRDLALIVREGQA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG E G+ VD
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDAELANESGI--PVD 202
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNG-LPGETHHSYIADNRVEN 414
+I++ L+ S+ V N EA F D EA + + + G HH
Sbjct: 203 KISDLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAGLLHHDV-------- 254
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 473
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVR
Sbjct: 255 ----------------RSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVR 298
Query: 474 QVGLVALEKLKHAARKKKMEA 494
Q+ + KL+ R ++ A
Sbjct: 299 QIEREVMSKLRKGERADRLRA 319
>gi|253702377|ref|YP_003023566.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacter sp. M21]
gi|251777227|gb|ACT19808.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacter sp.
M21]
Length = 584
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 153/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 344 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 403
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 404 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 463
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 464 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 514
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 515 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 573
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 574 SRAKKLKSFV 583
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 440 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 499
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 500 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 559
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 560 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 611
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 612 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 670
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 671 SRSRKMRSFL 680
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/306 (34%), Positives = 170/306 (55%), Gaps = 22/306 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ + +E LLT + L++ + G R ERL + + E Q ++ + +
Sbjct: 18 YLNEIGAEPLLTFEQEQHLAQTMSQGR-------RAAERLHNEPLLPLAEKQRLIAQVNA 70
Query: 256 ---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR +L+ SN+RLV+SIA+RY G + DL+Q G +GL+R ++KFD+S+G K STY
Sbjct: 71 GEQARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSVGLMRAVDKFDASRGLKFSTYA 130
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPSVDRIAEYLNM 369
+WIRQ + RA+ ++SRT+RLP HL ERL R ++LR E + P+++ +A+ +
Sbjct: 131 TYWIRQSIGRAIADHSRTVRLPVHLGERLS--RLSRLRQELSQQLDREPTLEELAQAAGL 188
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEV 429
S ++V A +A SLD G E I + ++ P+ V + L+ +V
Sbjct: 189 SVEQVERAEQAGLAPTSLDEPHTEDGGGALAE-----ILTDPLQPTPFDEVSESMLQADV 243
Query: 430 NKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
+ L RER I+RL YGLD E + T E I +R+ L+RERVRQ+ AL KL+ +
Sbjct: 244 QH-ALQQLSPRERSILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEHEALRKLRDPSL 302
Query: 489 KKKMEA 494
+++
Sbjct: 303 HPQLQG 308
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/340 (31%), Positives = 187/340 (55%), Gaps = 41/340 (12%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG-LSLDDHKLRLK---------ERL--- 235
I + ++ Y+K + ELL+ E + +KKI+ G +S + ++R K ER+
Sbjct: 124 INDPVRMYLKEIGRVELLSSQEEINFAKKIERGDISSEILEIRRKNEPLPEELLERIDLL 183
Query: 236 ---------GSSLRISRPELQS-----ILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 281
G+ I EL ++ E A+++LV +N+RLV+SIA+R+ G
Sbjct: 184 IQDAGEANDGNEFLIGVTELSDEEARRVIQEGEYAKKRLVEANLRLVVSIAKRHVGRGML 243
Query: 282 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 341
DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E +
Sbjct: 244 FLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 303
Query: 342 G-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 400
L+R + ++E G P + I+E + ++ +KVR ++ + +E SL G
Sbjct: 304 NKLVRIQRQLVQELGREPLPEEISEKMGIAPEKVR-------EILKISQEPV-SLESPVG 355
Query: 401 ETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECL 456
E S++ D + + P + LK E++ ++ TL +RE ++RL +GL D
Sbjct: 356 EEDDSHLGDFIPDADALSPSEFASNEMLKKELDD-VLETLTDREERVLRLRFGLEDGRTR 414
Query: 457 TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
T E++ K G++RER+RQ+ AL KL+H +R ++++ +
Sbjct: 415 TLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSRRLKDFM 454
>gi|404330390|ref|ZP_10970838.1| RNA polymerase sigma factor RpoD [Sporolactobacillus vineae DSM
21990 = SL153]
Length = 369
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 173/314 (55%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL+ E + L+K+IK G D+
Sbjct: 96 INDPVRMYLKEIGRVDLLSADEEIALAKRIKAG---DEE--------------------- 131
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 132 -------AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKF 184
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I + +
Sbjct: 185 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQELQDLGREPTPEEIGKKM 244
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++S +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 245 DLSPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDAKAPSDAAAYE 295
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 296 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 354
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ L
Sbjct: 355 LRHPSRSKQLKDFL 368
>gi|384455624|ref|YP_005668219.1| putative RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-mouse-Yit]
gi|346983967|dbj|BAK79643.1| putative RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-mouse-Yit]
Length = 350
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 171/313 (54%), Gaps = 42/313 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y+K + S +LLT E + LSKKIK ++ RI
Sbjct: 74 MDDPVRMYLKEIGSVQLLTSEEEILLSKKIKQN--------------DTTSRI------- 112
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
AR+KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 113 -------ARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDHTKGFKF 165
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + R ++ L+E G P + IA+ +
Sbjct: 166 STYATWWIRQSITRAIADQARTIRIPVHMVETINKYTRVSRQLLQELGRDPLSEEIAKEM 225
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM + KVR+ + + SL+ GE S++ D +++ P
Sbjct: 226 NMPENKVRDIRKIAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPAPAEVAAFTL 277
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL RE+ +++L +GLD T E++ K ++RER+RQ+ AL KL
Sbjct: 278 LKEQLMN-VLDTLSAREKNVLKLRFGLDDGRARTLEEVGKEFKVTRERIRQIEAKALRKL 336
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 337 RHPSRSKKLKDYL 349
>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|385820205|ref|YP_005856592.1| RNA polymerase sigma-70 subunit RpoD [Lactobacillus casei LC2W]
gi|385823402|ref|YP_005859744.1| RNA polymerase sigma-70 subunit RpoD [Lactobacillus casei BD-II]
gi|417980791|ref|ZP_12621470.1| RNA polymerase sigma factor [Lactobacillus casei 12A]
gi|417993010|ref|ZP_12633361.1| RNA polymerase sigma factor [Lactobacillus casei CRF28]
gi|417996364|ref|ZP_12636645.1| RNA polymerase sigma factor [Lactobacillus casei M36]
gi|417999242|ref|ZP_12639453.1| RNA polymerase sigma factor [Lactobacillus casei T71499]
gi|418002184|ref|ZP_12642307.1| RNA polymerase sigma factor [Lactobacillus casei UCD174]
gi|418008091|ref|ZP_12647961.1| RNA polymerase sigma factor [Lactobacillus casei UW4]
gi|418015186|ref|ZP_12654763.1| RNA polymerase sigma factor [Lactobacillus casei Lpc-37]
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]
gi|410524302|gb|EKP99214.1| RNA polymerase sigma factor [Lactobacillus casei 12A]
gi|410532419|gb|EKQ07127.1| RNA polymerase sigma factor [Lactobacillus casei CRF28]
gi|410535675|gb|EKQ10292.1| RNA polymerase sigma factor [Lactobacillus casei M36]
gi|410539518|gb|EKQ14046.1| RNA polymerase sigma factor [Lactobacillus casei T71499]
gi|410544727|gb|EKQ19046.1| RNA polymerase sigma factor [Lactobacillus casei UCD174]
gi|410547571|gb|EKQ21802.1| RNA polymerase sigma factor [Lactobacillus casei UW4]
gi|410552010|gb|EKQ26049.1| RNA polymerase sigma factor [Lactobacillus casei Lpc-37]
Length = 422
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 185 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 244
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 245 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 304
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 305 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 355
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 356 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 414
Query: 490 KKMEAML 496
K+++ L
Sbjct: 415 KQLKDFL 421
>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|416125300|ref|ZP_11595898.1| RNA polymerase sigma factor rpoD [Staphylococcus epidermidis
FRI909]
gi|417646996|ref|ZP_12296845.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU144]
gi|417656078|ref|ZP_12305769.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU028]
gi|417659664|ref|ZP_12309264.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU045]
gi|417908758|ref|ZP_12552515.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU037]
gi|417912195|ref|ZP_12555890.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU105]
gi|417913674|ref|ZP_12557337.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU109]
gi|418325674|ref|ZP_12936880.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU071]
gi|418411973|ref|ZP_12985239.1| RNA polymerase sigma factor rpoD [Staphylococcus epidermidis
BVS058A4]
gi|418605491|ref|ZP_13168815.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU041]
gi|418606613|ref|ZP_13169883.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU057]
gi|418609474|ref|ZP_13172626.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU065]
gi|418612798|ref|ZP_13175822.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU117]
gi|418614752|ref|ZP_13177714.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU118]
gi|418616221|ref|ZP_13179146.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU120]
gi|418621422|ref|ZP_13184198.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU123]
gi|418626383|ref|ZP_13188995.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU126]
gi|418629357|ref|ZP_13191865.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU127]
gi|418633017|ref|ZP_13195434.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU129]
gi|418665230|ref|ZP_13226680.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU081]
gi|420163067|ref|ZP_14669814.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM095]
gi|420165554|ref|ZP_14672245.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM088]
gi|420167958|ref|ZP_14674610.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM087]
gi|420170270|ref|ZP_14676831.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM070]
gi|420172614|ref|ZP_14679113.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM067]
gi|420178258|ref|ZP_14684591.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM057]
gi|420180066|ref|ZP_14686326.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM053]
gi|420183223|ref|ZP_14689356.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM049]
gi|420184534|ref|ZP_14690643.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM040]
gi|420187235|ref|ZP_14693256.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM039]
gi|420194859|ref|ZP_14700656.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM021]
gi|420197441|ref|ZP_14703165.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM020]
gi|420199494|ref|ZP_14705172.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM031]
gi|420201691|ref|ZP_14707301.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM018]
gi|420204477|ref|ZP_14710035.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM015]
gi|420206120|ref|ZP_14711630.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM008]
gi|420209067|ref|ZP_14714505.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM003]
gi|420211224|ref|ZP_14716598.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM001]
gi|420214021|ref|ZP_14719301.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05005]
gi|420216479|ref|ZP_14721687.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05001]
gi|420220507|ref|ZP_14725466.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH04008]
gi|420221652|ref|ZP_14726579.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH08001]
gi|420225758|ref|ZP_14730585.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH06004]
gi|420227349|ref|ZP_14732119.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05003]
gi|420229665|ref|ZP_14734370.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH04003]
gi|420234723|ref|ZP_14739283.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH051475]
gi|421606944|ref|ZP_16048195.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
AU12-03]
gi|47606037|sp|Q8CP24.1|RPOD_STAES RecName: Full=RNA polymerase sigma factor RpoD
gi|81674470|sp|Q5HNY7.1|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]
gi|341651206|gb|EGS75011.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU105]
gi|341654696|gb|EGS78434.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU109]
gi|341656119|gb|EGS79842.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU037]
gi|365228276|gb|EHM69461.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU071]
gi|374402380|gb|EHQ73410.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU041]
gi|374407389|gb|EHQ78251.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU057]
gi|374407688|gb|EHQ78540.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU065]
gi|374409205|gb|EHQ80005.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU081]
gi|374817875|gb|EHR82050.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU117]
gi|374819288|gb|EHR83416.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU118]
gi|374821047|gb|EHR85114.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU120]
gi|374829366|gb|EHR93170.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU123]
gi|374832817|gb|EHR96522.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU126]
gi|374834060|gb|EHR97720.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU127]
gi|374839836|gb|EHS03343.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU129]
gi|394234756|gb|EJD80330.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM095]
gi|394235355|gb|EJD80927.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM088]
gi|394237986|gb|EJD83472.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM087]
gi|394240608|gb|EJD86031.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM070]
gi|394241775|gb|EJD87184.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM067]
gi|394246884|gb|EJD92136.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM057]
gi|394249686|gb|EJD94899.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM049]
gi|394251498|gb|EJD96583.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM053]
gi|394256214|gb|EJE01147.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM039]
gi|394257185|gb|EJE02107.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM040]
gi|394263919|gb|EJE08640.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM021]
gi|394266248|gb|EJE10894.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM020]
gi|394271959|gb|EJE16438.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM018]
gi|394272276|gb|EJE16745.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM031]
gi|394273487|gb|EJE17918.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM015]
gi|394277959|gb|EJE22276.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM008]
gi|394279295|gb|EJE23603.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM003]
gi|394281677|gb|EJE25903.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIHLM001]
gi|394283943|gb|EJE28104.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05005]
gi|394285860|gb|EJE29926.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH04008]
gi|394290278|gb|EJE34142.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH08001]
gi|394291845|gb|EJE35628.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05001]
gi|394293192|gb|EJE36915.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH06004]
gi|394297218|gb|EJE40825.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH05003]
gi|394298959|gb|EJE42514.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH04003]
gi|394303966|gb|EJE47376.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
NIH051475]
gi|406657413|gb|EKC83801.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
AU12-03]
gi|410891556|gb|EKS39353.1| RNA polymerase sigma factor rpoD [Staphylococcus epidermidis
BVS058A4]
Length = 368
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|418324183|ref|ZP_12935433.1| RNA polymerase sigma factor RpoD, partial [Staphylococcus
pettenkoferi VCU012]
gi|365227431|gb|EHM68627.1| RNA polymerase sigma factor RpoD, partial [Staphylococcus
pettenkoferi VCU012]
Length = 317
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 171/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL+ E + L+K+I+ G
Sbjct: 44 INDPVRMYLKEIGRVDLLSAQEEIELAKRIEQG--------------------------- 76
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 77 ----DEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 132
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 133 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 192
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 193 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 243
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 244 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 302
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 303 LRHPSRSKRLKDFM 316
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 106/304 (34%), Positives = 172/304 (56%), Gaps = 28/304 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+ G+ L+ AE V L+K I+TGL + +L R L++ R +L+ I+ E
Sbjct: 25 VRAYLNGIGKHRLINAAEEVDLAKAIETGL-FAEWRLSDPARPIDDLQLER-DLRQIVAE 82
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A+ L+ +N+RLV+SIA+RY G + DL+Q G +GL+R +EKFD +KGFK STY
Sbjct: 83 GRRAKSMLLKANLRLVVSIAKRYVGRGVALLDLIQEGNLGLIRAVEKFDYTKGFKFSTYA 142
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPSVDRIAEYLNM 369
WWIRQ ++RA+ + +RT+R+P H E++ I AK+R E E+G P + IAE + +
Sbjct: 143 TWWIRQAITRAMADQARTIRVPAHTAEQINRI--AKIRRELTAEQGREPRHEEIAERMGL 200
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA-------DNRVENNPWHGVDD 422
+V ++ S DR+ SL+ + + ++ D E NP +
Sbjct: 201 EPYRVL-------ELLSYDRDPI-SLDQPVSDDRQTPLSDLVARPVDPAAEPNPANA--- 249
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 481
L+ E+ + + L RER ++R +G+D T E++ + +GLSRERVRQ+ ++L
Sbjct: 250 -QLRQELER-ALTDLPARERAVLRARFGIDDGRQRTLEEVGEELGLSRERVRQLEKLSLN 307
Query: 482 KLKH 485
KL+
Sbjct: 308 KLRE 311
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|390559809|ref|ZP_10244092.1| RNA polymerase sigma factor [Nitrolancetus hollandicus Lb]
gi|390173609|emb|CCF83391.1| RNA polymerase sigma factor [Nitrolancetus hollandicus Lb]
Length = 537
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 147/249 (59%), Gaps = 16/249 (6%)
Query: 254 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 313
AR +L +N+RLV+S+A++Y G M DLVQ G +GL+R +EKF KGFK STY
Sbjct: 298 DFARMRLTEANLRLVVSVAKKYVGRGMSMLDLVQEGNLGLIRAVEKFQHHKGFKFSTYAT 357
Query: 314 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 372
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ +E+G P+ + IA + M+
Sbjct: 358 WWIRQAITRAIADQARTIRIPVHMVETINRLIRTSRRLQQERGREPTSEEIAAEMGMAPD 417
Query: 373 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 428
K+R ++ + +E SL GE S + D +E++ D A LK++
Sbjct: 418 KIR-------EIMKISQEPV-SLEMPIGEEEDSNLGDF-IEDHKALAPSDAASHKMLKEQ 468
Query: 429 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
V ++ +L ERER ++ L +GLD T E++ + G++RER+RQ+ AL KL+H +
Sbjct: 469 VED-VLGSLSERERRVLELRFGLDDGRSRTLEEVGREFGVTRERIRQIEAKALRKLRHPS 527
Query: 488 RKKKMEAML 496
R KK+ L
Sbjct: 528 RSKKLRDYL 536
>gi|347522196|ref|YP_004779767.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae ATCC 49156]
gi|385833581|ref|YP_005871356.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae Lg2]
gi|420143841|ref|ZP_14651334.1| RNA polymerase sigma factor [Lactococcus garvieae IPLA 31405]
gi|343180764|dbj|BAK59103.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae ATCC 49156]
gi|343182734|dbj|BAK61072.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae Lg2]
gi|391856230|gb|EIT66774.1| RNA polymerase sigma factor [Lactococcus garvieae IPLA 31405]
Length = 460
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 220 EAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTY 279
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G P + I + L+M+
Sbjct: 280 ATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPLPEEIGKELHMT 339
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 427
KVR +V + +E SL GE S++ D + V +P + L++
Sbjct: 340 PDKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLRE 391
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 392 QLDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHP 450
Query: 487 ARKKKM 492
R K +
Sbjct: 451 RRSKPL 456
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L++++ +
Sbjct: 39 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLEAVVRDGQA 94
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 95 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 154
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 155 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PID 212
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 213 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 264
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 265 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 309
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 310 IERDVMSKLRNGERADRL 327
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 110/321 (34%), Positives = 166/321 (51%), Gaps = 52/321 (16%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L +RL ++ + +L I+ +
Sbjct: 29 YLNGIGRTALLTAADEVELAKRIEAGLYAQ-HLLETSKRLSAA---KKKDLAMIVRDGQA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG + E G+ V+
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELAAESGI--PVE 202
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNG-LPGETHHSYIADNRVEN 414
+IA+ L+ S+ V N EA F D EA + + + G HH
Sbjct: 203 KIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAGLLHHDV-------- 254
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 473
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVR
Sbjct: 255 ----------------RSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVR 298
Query: 474 QVGLVALEKLKHAARKKKMEA 494
Q+ + KL+ R ++ A
Sbjct: 299 QIEREVMAKLRKGERADRLRA 319
>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|385830046|ref|YP_005867859.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp. lactis
CV56]
gi|418038000|ref|ZP_12676355.1| hypothetical protein LLCRE1631_01162 [Lactococcus lactis subsp.
cremoris CNCM I-1631]
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]
gi|354693879|gb|EHE93599.1| hypothetical protein LLCRE1631_01162 [Lactococcus lactis subsp.
cremoris CNCM I-1631]
gi|374672552|dbj|BAL50443.1| major RNA polymerase sigma factor [Lactococcus lactis subsp. lactis
IO-1]
Length = 447
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 149/245 (60%), Gaps = 14/245 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 488 RKKKM 492
R K +
Sbjct: 439 RSKPL 443
>gi|421766921|ref|ZP_16203688.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae DCC43]
gi|407624577|gb|EKF51315.1| RNA polymerase sigma factor RpoD [Lactococcus garvieae DCC43]
Length = 460
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 220 EAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTY 279
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G P + I + L+M+
Sbjct: 280 ATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPLPEEIGKELHMT 339
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 427
KVR +V + +E SL GE S++ D + V +P + L++
Sbjct: 340 PDKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLRE 391
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 392 QLDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHP 450
Query: 487 ARKKKM 492
R K +
Sbjct: 451 RRSKPL 456
>gi|319892618|ref|YP_004149493.1| RNA polymerase sigma factor RpoD [Staphylococcus pseudintermedius
HKU10-03]
gi|386319173|ref|YP_006015336.1| RNA polymerase sigma factor SigA [Staphylococcus pseudintermedius
ED99]
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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 171/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL+ E + L+K+I+ G
Sbjct: 96 INDPVRMYLKEIGRVDLLSAQEEIELAKRIEQG--------------------------- 128
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 129 ----DEVAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 184
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 185 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 244
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 245 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 295
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 296 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 354
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 355 LRHPSRSKRLKDFM 368
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 174/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L E L +++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLCEELERDPKDNEWANAVG 139
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 MPLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 317
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/311 (32%), Positives = 180/311 (57%), Gaps = 25/311 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKER---------LGSSLRISR 243
++ Y+K + LLTH E V S++++ ++L+ K L E+ + +S+
Sbjct: 11 VRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANLSQ 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+L+ L+ A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RQLKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + G + S+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEQSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 419
+A+ L ++ K+VR+ E + SLD G+ + + + + +E++ P
Sbjct: 191 LADELGLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTELIE--LEDDGELPDDY 240
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
ALK ++ ++ + L +++E++ L +GL D T I + + +SRERVRQ+
Sbjct: 241 ATHAALKRDLARM-LNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVRQIEHG 299
Query: 479 ALEKLKHAARK 489
+L KL+ RK
Sbjct: 300 SLAKLRKQKRK 310
>gi|417885525|ref|ZP_12529679.1| RNA polymerase sigma factor RpoD [Lactobacillus oris F0423]
gi|341595447|gb|EGS38096.1| RNA polymerase sigma factor RpoD [Lactobacillus oris F0423]
Length = 380
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 125/422 (29%), Positives = 203/422 (48%), Gaps = 75/422 (17%)
Query: 95 NSIEEESSELDYSVEALLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSAR 154
NS + + E D +V L+ K E Q++ VLTD K K + G+
Sbjct: 13 NSEDFDQQEYDTAVGKLIRQYKKQKEIQYD------VLTD----KLAKPYELNADGID-- 60
Query: 155 QRRLNSKKKILSQNKSILQQNGSKQLRSMISPE-LIQNRLKG---------------YVK 198
N + + S++ NG R++ + E L QN +K Y+K
Sbjct: 61 ----NLLQNVEDAGISVVDANGDPDPRALKATEKLSQNAMKDTSAPTGVKINDPVRMYLK 116
Query: 199 GVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLARE 258
+ LLT E V+L+ +I+ G +A++
Sbjct: 117 EIGRVNLLTADEEVKLALRIEQG-------------------------------DEVAKQ 145
Query: 259 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 318
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ
Sbjct: 146 QLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQ 205
Query: 319 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 377
++RA+ + +RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN
Sbjct: 206 AITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN- 264
Query: 378 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIV 435
+ + +E SL GE S++ D + + D A + +L ++
Sbjct: 265 ------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLD 317
Query: 436 TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++
Sbjct: 318 TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKD 377
Query: 495 ML 496
L
Sbjct: 378 FL 379
>gi|189424079|ref|YP_001951256.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacter lovleyi
SZ]
gi|189420338|gb|ACD94736.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacter lovleyi
SZ]
Length = 586
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 87/250 (34%), Positives = 153/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+A+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 346 ARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 405
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IA+ + +
Sbjct: 406 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQENGREPSPEEIADRMQLPL 465
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ NP V L +
Sbjct: 466 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVNPLEAVIKANLSE 516
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 517 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 575
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 576 SRSKKLKSFV 585
>gi|332638574|ref|ZP_08417437.1| RNA polymerase sigma factor [Weissella cibaria KACC 11862]
Length = 377
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 110/356 (30%), Positives = 182/356 (51%), Gaps = 45/356 (12%)
Query: 146 VTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEEL 205
+ +G+S + + L K+ L + KQ + I + ++ Y+K + L
Sbjct: 61 IESAGISIVDEKGEPTARALENKKTKLSEKELKQAADAPTGMKINDPVRMYLKEIGRVSL 120
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNV 265
LT E V L+++I+ G DD A+++L +N+
Sbjct: 121 LTGDEEVALAERIEQG---DDT----------------------------AKQELAEANL 149
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 150 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 209
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR + L++ G P+ + I +++ KVR+ +
Sbjct: 210 DQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIVTDKVRD-------I 262
Query: 385 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 263 LKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYQMLKEQLES-VLDTLTDRE 320
Query: 442 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++ L
Sbjct: 321 ENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLRDFL 376
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSNLKE 596
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 132 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ L+M ++V
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKELDMPVERV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 252 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 303
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 304 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 362
Query: 491 KMEAML 496
K+ L
Sbjct: 363 KLRDYL 368
>gi|254821657|ref|ZP_05226658.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|379748152|ref|YP_005338973.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|379755443|ref|YP_005344115.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-02]
gi|379762989|ref|YP_005349386.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-64]
gi|387876818|ref|YP_006307122.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MOTT36Y]
gi|406031681|ref|YP_006730572.1| RNA polymerase sigma factor sigB [Mycobacterium indicus pranii MTCC
9506]
gi|443306610|ref|ZP_21036398.1| RNA polymerase sigma factor SigB [Mycobacterium sp. H4Y]
gi|378800516|gb|AFC44652.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|378805659|gb|AFC49794.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-02]
gi|378810931|gb|AFC55065.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-64]
gi|386790276|gb|AFJ36395.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MOTT36Y]
gi|405130228|gb|AFS15483.1| RNA polymerase sigma factor sigB [Mycobacterium indicus pranii MTCC
9506]
gi|442768174|gb|ELR86168.1| RNA polymerase sigma factor SigB [Mycobacterium sp. H4Y]
Length = 319
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L++++ +
Sbjct: 26 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLEAVVRDGKA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ VD
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PVD 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IERDVMSKLRNGERADRL 314
>gi|323703334|ref|ZP_08114984.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
nigrificans DSM 574]
gi|333924029|ref|YP_004497609.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfotomaculum
carboxydivorans CO-1-SRB]
gi|323531697|gb|EGB21586.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
nigrificans DSM 574]
gi|333749590|gb|AEF94697.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
carboxydivorans CO-1-SRB]
Length = 367
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 172/306 (56%), Gaps = 32/306 (10%)
Query: 207 THAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLARE------- 258
T E V + I G+ +DD ++ LKE I R L S E LA+
Sbjct: 77 TPTEDVEIDLSIPEGIGIDDPVRMYLKE-------IGRVPLLSPEEEVELAKRMEQGDEE 129
Query: 259 ---KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 130 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 189
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ +N+S KV
Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMNISGDKV 249
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + P L++++++
Sbjct: 250 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDADARAPAEEASFTLLREQLDE 301
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +GLD T E++ ++ G++RER+RQ+ L KL+H +R K
Sbjct: 302 -VLKTLTDREQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSK 360
Query: 491 KMEAML 496
K++ L
Sbjct: 361 KLKDYL 366
>gi|125973412|ref|YP_001037322.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum ATCC
27405]
gi|125713637|gb|ABN52129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
thermocellum ATCC 27405]
Length = 358
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 104/292 (35%), Positives = 167/292 (57%), Gaps = 18/292 (6%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ---SILMECSLAREKLVMSNVRLVM 269
L I G+S+DD ++ LKE L + E++ I + A+ +L +N+RLV+
Sbjct: 75 LDLSIPEGISIDDPVRMYLKEIGKVPLLTAEEEIELAHRIEQGDAEAKRRLAEANLRLVV 134
Query: 270 SIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSR 329
SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +R
Sbjct: 135 SIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQAR 194
Query: 330 TLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD 388
T+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR ++ +
Sbjct: 195 TIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR-------EIMKIS 247
Query: 389 REAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREII 445
+E SL GE S++ D +++ P LK+++ ++ TL RE +++
Sbjct: 248 QEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDTLTPREEKVL 305
Query: 446 RLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 306 RLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 357
>gi|417989747|ref|ZP_12630248.1| RNA polymerase sigma factor [Lactobacillus casei A2-362]
gi|410537492|gb|EKQ12066.1| RNA polymerase sigma factor [Lactobacillus casei A2-362]
Length = 422
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 185 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 244
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 245 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 304
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 305 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 355
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 356 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 414
Query: 490 KKMEAML 496
K+++ L
Sbjct: 415 KQLKDFL 421
>gi|333371633|ref|ZP_08463578.1| DNA-directed RNA polymerase sigma subunit SigA [Desmospora sp.
8437]
gi|332975851|gb|EGK12729.1| DNA-directed RNA polymerase sigma subunit SigA [Desmospora sp.
8437]
Length = 372
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 93/245 (37%), Positives = 146/245 (59%), Gaps = 12/245 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFRKGFKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE +++S +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEMDLSPEKV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 432
R ++ + +E SL GE S++ D + + L E K
Sbjct: 255 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIPDDDAQAPADAAAYELLKEQLKD 306
Query: 433 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 307 VLDTLSDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 366
Query: 492 MEAML 496
++ L
Sbjct: 367 LKDFL 371
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 171/303 (56%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LL A+ V LSK+++ GL +HKL + L LR +L ++ +
Sbjct: 130 YLREIGKVPLLNAAQEVELSKRVEAGL-FAEHKLDTDQDLADDLR---RDLGVLVTDGQA 185
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++LV +N+RLV+S+A++Y G + DLVQ G +GL+R +EKFD +KG+K STY WW
Sbjct: 186 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 245
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ + RAL + +RT+R+P H+ E++ I + +L G P+ + +A L+M ++V
Sbjct: 246 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQV 305
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
SL+ + + G+ +I D+ +P A++DE++ ++
Sbjct: 306 VELRRYAQDTVSLETSVGDDGDSVLGD----FIEDSDA-TSPADAASYGAMQDEIDN-VL 359
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE++RL +GL D + T ++ R+GL+RER+RQ+ L +L+ A ++
Sbjct: 360 GALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLR 419
Query: 494 AML 496
L
Sbjct: 420 EFL 422
>gi|402816528|ref|ZP_10866118.1| RNA polymerase sigma factor rpoD [Paenibacillus alvei DSM 29]
gi|402505430|gb|EJW15955.1| RNA polymerase sigma factor rpoD [Paenibacillus alvei DSM 29]
Length = 298
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 170/308 (55%), Gaps = 43/308 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+KG+ LL+ E V L+K+I G D+
Sbjct: 25 IDDSVRMYLKGIGRVGLLSTEEEVDLAKRIAEG---DEE--------------------- 60
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A++ L +N+RLV+SIA+RY G + DL+Q G +GL++ ++KFD +KGFK
Sbjct: 61 -------AKKMLTEANLRLVVSIARRYAGRGMSLLDLIQEGNMGLIKAVDKFDYTKGFKF 113
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P V+ IA+ +
Sbjct: 114 STYATWWIRQAITRAIADQARTIRIPVHMIETINKLVRVSRQLVQELGREPEVEEIAKEM 173
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD 427
+S +KVR ++ + ++ SL GE H + + D + + V+ A +
Sbjct: 174 ELSVEKVR-------EIMKISQDPI-SLETPIGEEHDTKLGDFIEDQDAQSPVESAAYES 225
Query: 428 EVNKL--IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+L ++ TL ERE ++RL +GLD T E++ + G++RER+RQ+ AL KL+
Sbjct: 226 LKTQLGDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLR 285
Query: 485 HAARKKKM 492
H +R K++
Sbjct: 286 HPSRSKRL 293
>gi|419771781|ref|ZP_14297827.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-K]
gi|383360600|gb|EID37995.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-K]
Length = 368
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|153813734|ref|ZP_01966402.1| hypothetical protein RUMOBE_04167 [Ruminococcus obeum ATCC 29174]
gi|149830174|gb|EDM85267.1| RNA polymerase sigma factor RpoD [Ruminococcus obeum ATCC 29174]
Length = 330
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 113/359 (31%), Positives = 189/359 (52%), Gaps = 49/359 (13%)
Query: 148 CSGVSARQRRLNSKKKILSQNKSILQQNGSKQLR----SMISPE--LIQNRLKGYVKGVV 201
SGV + N ++ IL + I + + +++ + PE I++ ++ Y+K +
Sbjct: 10 ASGVDVLRISGNDEELILDDDADIEKMDDEEEIELDKIDLSVPEGVSIEDPVRMYLKEIG 69
Query: 202 SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLV 261
LLT E + L+K+++ G D+ A+++L
Sbjct: 70 KVSLLTADEEIELAKRMEQG---DEE----------------------------AKKRLA 98
Query: 262 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 321
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++
Sbjct: 99 EANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAIT 158
Query: 322 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 380
RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE + M +VR
Sbjct: 159 RAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMKMPVDRVR----- 213
Query: 381 IGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIV--TLG 438
++ + +E SL GE S++ D ++N D A +LI V TL
Sbjct: 214 --EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLIEVLGTLT 270
Query: 439 EREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +K++ L
Sbjct: 271 EREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYL 329
>gi|337286185|ref|YP_004625658.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermodesulfatator
indicus DSM 15286]
gi|335359013|gb|AEH44694.1| RNA polymerase, sigma 70 subunit, RpoD subfamily
[Thermodesulfatator indicus DSM 15286]
Length = 443
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 106/295 (35%), Positives = 159/295 (53%), Gaps = 25/295 (8%)
Query: 210 EVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL----------AREK 259
E +RL KK GL L + R + PE +SI C A+++
Sbjct: 151 EQIRLWKKRDPGLKPKKSHLNIMVRTVQEIHKKYPEDESIAELCRAIEERAAQVEKAKDE 210
Query: 260 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 319
+V +N+RLV+SIA+RY G +ADL+Q G +GL+R + +FD SKG K STY WWIRQ
Sbjct: 211 MVKANLRLVVSIAKRYMGQGLSLADLIQEGNLGLMRAVFRFDYSKGNKFSTYASWWIRQA 270
Query: 320 VSRALVENSRTLRLPNHLHE-RLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 378
++RA+++ +RT+RLP H E R + ++E G P+ I+E + Q+K+
Sbjct: 271 ITRAILDKTRTIRLPVHFLELRSQFFKAFYELVKELGREPTPAEISERTGIPQEKILAIF 330
Query: 379 EAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIV 435
EA + SL+ LP S + D N+ +P+ V D L ++V L +
Sbjct: 331 EASKEPVSLE---------LPIGDEDSTLGDFIENKESPSPFEQVKDRDLSEKVRNL-LS 380
Query: 436 TLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
TL RE +IIRL +G+ +E T E+I KR G+SRER+RQ+ AL +L+ +K
Sbjct: 381 TLSPREEKIIRLRFGIGEESEYTLEEIGKRFGVSRERIRQIEKKALSRLRQMTKK 435
>gi|453073916|ref|ZP_21976714.1| RNA polymerase sigma factor SigB [Rhodococcus triatomae BKS 15-14]
gi|452765402|gb|EME23659.1| RNA polymerase sigma factor SigB [Rhodococcus triatomae BKS 15-14]
Length = 323
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/299 (35%), Positives = 164/299 (54%), Gaps = 12/299 (4%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L +RL +S + +L +I+ +
Sbjct: 30 YLNGIGRTALLTAADEVELAKRIEAGLYAA-HVLETGKRLSAS---KKRDLAAIVRDGEA 85
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 86 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + + +AE + K+
Sbjct: 146 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELAEESGIPAAKI 205
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD G+ +I D+ + V L +V ++
Sbjct: 206 ADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDSEA-TSAESAVIAGLLHSDVRS-VL 259
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
TL ERE+++IR YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 260 ATLDEREQQVIRFRYGLDDGQPRTLDQIGKIFGLSRERVRQIEREVMGKLRQGERADRL 318
>gi|342732217|ref|YP_004771056.1| RNA polymerase sigma factor RpoD [Candidatus Arthromitus sp.
SFB-mouse-Japan]
gi|417962552|ref|ZP_12604735.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-3]
gi|417965326|ref|ZP_12606875.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-4]
gi|417968344|ref|ZP_12609373.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-co]
gi|418016381|ref|ZP_12655946.1| RNA polymerase primary sigma factor [Candidatus Arthromitus sp.
SFB-mouse-NYU]
gi|418372471|ref|ZP_12964563.1| RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-mouse-SU]
gi|342329672|dbj|BAK56314.1| RNA polymerase sigma factor RpoD [Candidatus Arthromitus sp.
SFB-mouse-Japan]
gi|345506716|gb|EGX29010.1| RNA polymerase primary sigma factor [Candidatus Arthromitus sp.
SFB-mouse-NYU]
gi|380336389|gb|EIA26406.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-3]
gi|380337947|gb|EIA26922.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-4]
gi|380339859|gb|EIA28527.1| RNA polymerase sigma factor [Candidatus Arthromitus sp. SFB-co]
gi|380342140|gb|EIA30585.1| RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-mouse-SU]
Length = 357
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 171/313 (54%), Gaps = 42/313 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y+K + S +LLT E + LSKKIK ++ RI
Sbjct: 81 MDDPVRMYLKEIGSVQLLTSEEEILLSKKIKQN--------------DTTSRI------- 119
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
AR+KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 120 -------ARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDHTKGFKF 172
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + R ++ L+E G P + IA+ +
Sbjct: 173 STYATWWIRQSITRAIADQARTIRIPVHMVETINKYTRVSRQLLQELGRDPLSEEIAKEM 232
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM + KVR+ + + SL+ GE S++ D +++ P
Sbjct: 233 NMPENKVRDIRKIAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPAPAEVAAFTL 284
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL RE+ +++L +GLD T E++ K ++RER+RQ+ AL KL
Sbjct: 285 LKEQLMN-VLDTLSAREKNVLKLRFGLDDGRARTLEEVGKEFKVTRERIRQIEAKALRKL 343
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 344 RHPSRSKKLKDYL 356
>gi|384566576|ref|ZP_10013680.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
glauca K62]
gi|384522430|gb|EIE99625.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
glauca K62]
Length = 439
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 137 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVAEEEGEKLSTQMRRDLKWI 195
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KGFK S
Sbjct: 196 VRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGFKFS 255
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 256 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 313
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 314 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 365
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 366 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 424
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 425 LRHPSRSQ 432
>gi|402829507|ref|ZP_10878383.1| RNA polymerase sigma factor RpoD [Slackia sp. CM382]
gi|402284488|gb|EJU32991.1| RNA polymerase sigma factor RpoD [Slackia sp. CM382]
Length = 394
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/322 (32%), Positives = 186/322 (57%), Gaps = 30/322 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL-------DDHKLRLKERLGSSLR 240
L + ++ Y+K + LLT AE + L+ KI+ G++ +D + L R R
Sbjct: 88 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATAELERAEDEGIELNRR--DKRR 145
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++R ++++ ++ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 146 LTR--VEAVGLD---AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 200
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ P+
Sbjct: 201 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLNRDPT 260
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---- 415
+ I E + +S ++VR ++ + +E SL GE S + D +E++
Sbjct: 261 PEEIGEKMGLSAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDSAVV 311
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
P L+++++K ++ L ERER++I L +GL D T E++ + G++RER+RQ
Sbjct: 312 PPDAASFSMLQEQLSK-VLDGLAERERKVISLRFGLEDGHPHTLEEVGREFGVTRERIRQ 370
Query: 475 VGLVALEKLKHAARKKKMEAML 496
+ L KL+H +R K++ L
Sbjct: 371 IESKTLAKLRHPSRSSKLKDYL 392
>gi|293400669|ref|ZP_06644814.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
5_2_54FAA]
gi|373452016|ref|ZP_09543934.1| RNA polymerase sigma factor RpoD [Eubacterium sp. 3_1_31]
gi|291305695|gb|EFE46939.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
5_2_54FAA]
gi|371967448|gb|EHO84919.1| RNA polymerase sigma factor RpoD [Eubacterium sp. 3_1_31]
Length = 396
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 152/251 (60%), Gaps = 19/251 (7%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 156 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 215
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 373
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 216 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 275
Query: 374 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 428
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 276 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 325
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 326 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 384
Query: 488 RKKKMEAMLVK 498
R K+++ + K
Sbjct: 385 RSKRLKDFVDK 395
>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|418619989|ref|ZP_13182800.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis VCU122]
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]
gi|374823552|gb|EHR87547.1| RNA polymerase sigma factor RpoD [Staphylococcus hominis VCU122]
Length = 368
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/322 (32%), Positives = 186/322 (57%), Gaps = 30/322 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL-------DDHKLRLKERLGSSLR 240
L + ++ Y+K + LLT AE + L+ KI+ G++ +D + L R R
Sbjct: 77 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATAELERAEDEGIELNRR--DKRR 134
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
++R ++++ ++ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 135 LTR--VEAVGLD---AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 189
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
D +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ P+
Sbjct: 190 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLNRDPT 249
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---- 415
+ I E + +S ++VR ++ + +E SL GE S + D +E++
Sbjct: 250 PEEIGEKMGLSAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDSAVV 300
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
P L+++++K ++ L ERER++I L +GL D T E++ + G++RER+RQ
Sbjct: 301 PPDAASFSMLQEQLSK-VLDGLAERERKVISLRFGLEDGHPHTLEEVGREFGVTRERIRQ 359
Query: 475 VGLVALEKLKHAARKKKMEAML 496
+ L KL+H +R K++ L
Sbjct: 360 IESKTLAKLRHPSRSSKLKDYL 381
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 138 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ ++MS ++V
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMDMSVERV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 258 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 309
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 310 -VLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 368
Query: 491 KMEAML 496
K++ L
Sbjct: 369 KLKDYL 374
>gi|365902695|ref|ZP_09440518.1| RNA polymerase sigma factor RpoD [Lactobacillus malefermentans KCTC
3548]
Length = 410
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 173 AKQQLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 232
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 233 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPAPEEIGAEMDMPTEKV 292
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D +N+ D A LK+++
Sbjct: 293 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDNDATSPADHAAYELLKEQLEG 344
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K
Sbjct: 345 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSK 403
Query: 491 KMEAML 496
+++ L
Sbjct: 404 QLKDFL 409
>gi|355670644|ref|ZP_09057391.1| RNA polymerase sigma factor rpoD [Clostridium citroniae WAL-17108]
gi|354816081|gb|EHF00670.1| RNA polymerase sigma factor rpoD [Clostridium citroniae WAL-17108]
Length = 374
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 87/246 (35%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 136 ARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R++ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA +++
Sbjct: 196 IRQAITRSIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARVDL----- 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
E + ++ + +E SL GE S++ D ++N P L +++ +
Sbjct: 251 --PVERVSEILKMSQEPV-SLETPIGEEEDSHLVDFIQDDNVLVPQDAAAFTLLHEQLME 307
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
+++TL ERE++++RL +GLD T E++ ++ ++RER+RQ+ AL KL+H +R K
Sbjct: 308 -VLLTLTEREQKVLRLRFGLDDGRPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPSRSK 366
Query: 491 KMEAML 496
K++ L
Sbjct: 367 KLKDYL 372
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 153/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 343 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 402
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 403 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 462
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 463 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 513
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 514 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 572
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 573 SRAKKLKSFV 582
>gi|313897367|ref|ZP_07830910.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2]
gi|346314492|ref|ZP_08856011.1| RNA polymerase sigma factor rpoD [Erysipelotrichaceae bacterium
2_2_44A]
gi|373121227|ref|ZP_09535095.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
21_3]
gi|422327239|ref|ZP_16408266.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
6_1_45]
gi|312957737|gb|EFR39362.1| RNA polymerase sigma factor RpoD [Clostridium sp. HGF2]
gi|345906227|gb|EGX75956.1| RNA polymerase sigma factor rpoD [Erysipelotrichaceae bacterium
2_2_44A]
gi|371663933|gb|EHO29117.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
6_1_45]
gi|371665245|gb|EHO30410.1| RNA polymerase sigma factor RpoD [Erysipelotrichaceae bacterium
21_3]
Length = 398
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 152/251 (60%), Gaps = 19/251 (7%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 158 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 217
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 373
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 277
Query: 374 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 428
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 278 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 327
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 328 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 386
Query: 488 RKKKMEAMLVK 498
R K+++ + K
Sbjct: 387 RSKRLKDFVDK 397
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/292 (35%), Positives = 167/292 (57%), Gaps = 18/292 (6%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ---SILMECSLAREKLVMSNVRLVM 269
L I G+S+DD ++ LKE L + E++ I + A+ +L +N+RLV+
Sbjct: 75 LDLSIPEGISIDDPVRMYLKEIGKVPLLTAEEEIELAHRIEQGDAEAKRRLAEANLRLVV 134
Query: 270 SIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSR 329
SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +R
Sbjct: 135 SIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQAR 194
Query: 330 TLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD 388
T+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR ++ +
Sbjct: 195 TIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR-------EIMKIS 247
Query: 389 REAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREII 445
+E SL GE S++ D +++ P LK+++ ++ TL RE +++
Sbjct: 248 QEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDTLTPREEKVL 305
Query: 446 RLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 306 RLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 357
>gi|355682428|ref|ZP_09062438.1| hypothetical protein HMPREF9469_05475 [Clostridium citroniae
WAL-17108]
gi|354811008|gb|EHE95644.1| hypothetical protein HMPREF9469_05475 [Clostridium citroniae
WAL-17108]
Length = 408
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 146/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A KLV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 170 AGRKLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 229
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
++Q ++R+L + SRT+RLP H+ E + IR A+ L + G PS + +AE + +K+V
Sbjct: 230 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVRLGREPSTEEVAEEVGFPEKRV 289
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 290 IELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKAESFLLREEIDAM-L 343
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
L RERE+I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ +K+
Sbjct: 344 QGLNPREREVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSRKIR 403
Query: 494 AML 496
L
Sbjct: 404 DFL 406
>gi|347542294|ref|YP_004856930.1| putative RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-rat-Yit]
gi|346985329|dbj|BAK81004.1| putative RNA polymerase sigma factor [Candidatus Arthromitus sp.
SFB-rat-Yit]
Length = 350
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 169/313 (53%), Gaps = 42/313 (13%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+ + ++ Y+K + S +LLT E + LSKKIK
Sbjct: 74 MDDPVRMYLKEIGSVQLLTSEEEILLSKKIKQND-------------------------- 107
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+ +AR+KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 108 --VTSRMARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDHTKGFKF 165
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + R ++ L+E G P + IA+ +
Sbjct: 166 STYATWWIRQSITRAIADQARTIRIPVHMVETINKYTRVSRQLLQELGRDPLSEEIAKEM 225
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
NM + KVR+ + + SL+ GE S++ D +++ P
Sbjct: 226 NMPENKVRDIRKIAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPAPAEVAAFTL 277
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL RE+ +++L +GLD T E++ K ++RER+RQ+ AL KL
Sbjct: 278 LKEQLMN-VLDTLSPREKNVLKLRFGLDDGRARTLEEVGKEFKVTRERIRQIEAKALRKL 336
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 337 RHPSRSKKLKDYL 349
>gi|379709871|ref|YP_005265076.1| RNA polymerase sigma factor SigB [Nocardia cyriacigeorgica GUH-2]
gi|374847370|emb|CCF64440.1| RNA polymerase sigma factor SigB [Nocardia cyriacigeorgica GUH-2]
Length = 322
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 165/321 (51%), Gaps = 52/321 (16%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ GL H L +RL ++ + +L I+ E
Sbjct: 29 YLNGIGRTALLTAADEVELAKRIEAGLYAQ-HLLETGKRLSAA---RKRDLAVIVREGQA 84
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 85 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 144
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG E G+ V+
Sbjct: 145 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELANESGI--PVE 202
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNG-LPGETHHSYIADNRVEN 414
+IA+ L+ S+ V N EA F D EA + + + G HH
Sbjct: 203 KIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAGLLHHDV-------- 254
Query: 415 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 473
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVR
Sbjct: 255 ----------------RSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVR 298
Query: 474 QVGLVALEKLKHAARKKKMEA 494
Q+ + KL+ R ++ A
Sbjct: 299 QIEREVMSKLRKGERADRLRA 319
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + + +L +++ +
Sbjct: 36 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTRKRLGEN---RKRDLAAVVRDGEA 91
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 92 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 151
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ V+
Sbjct: 152 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PVE 209
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 210 KITDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTDI-------- 261
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 262 ---------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 306
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 307 IEREVMAKLRNGERADRL 324
>gi|414077761|ref|YP_006997079.1| RpoD family RNA polymerase sigma subunit SigD [Anabaena sp. 90]
gi|413971177|gb|AFW95266.1| RpoD family RNA polymerase sigma subunit SigD [Anabaena sp. 90]
Length = 318
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 170/303 (56%), Gaps = 18/303 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH E + K+++ +L + + L +LG ++ I
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRSTALHEIREGLAAQLGHEPTVEEWAAASDIEV 70
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 SELNQAIAVGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L + G P+V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQGLGRAPTVAE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+++ L+++ K+VR E SLD + + GE A P V
Sbjct: 191 LSQELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDTGA------TPEDFVMQ 244
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L ++ + I+ L +++E+I L +GL D + LT I + + +SRERVRQ+ AL
Sbjct: 245 TSLSYDLER-IMSELTPQQKEVISLRFGLVDGQSLTLAKIGEVLNISRERVRQIEREALN 303
Query: 482 KLK 484
KL+
Sbjct: 304 KLR 306
>gi|383763158|ref|YP_005442140.1| RNA polymerase sigma factor SigA [Caldilinea aerophila DSM 14535 =
NBRC 104270]
gi|381383426|dbj|BAM00243.1| RNA polymerase sigma factor SigA [Caldilinea aerophila DSM 14535 =
NBRC 104270]
Length = 441
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 109/336 (32%), Positives = 182/336 (54%), Gaps = 38/336 (11%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL------RLKERLGSSLRISRPELQSI 249
Y++ + LLT E + L++KI+ G+ + KL R ++ L + EL+ +
Sbjct: 110 YLRDIGRHPLLTAEEEMELAEKIRLGVEAE-KKLQELFGGRSEDELTDEELDQKDELEML 168
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + +A +L SN+RLV+S+A+RY G + DL+Q G +GLLR ++KFD + GFK S
Sbjct: 169 VHQGRMAHSRLAQSNLRLVVSVAKRYIGRGLNFLDLIQEGNLGLLRAVDKFDHTLGFKFS 228
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA---E 365
TY WWIRQ +SRA+ + +RT+R+P H+ E + + RL+++ G P+ + IA +
Sbjct: 229 TYATWWIRQAISRAIADQARTIRIPVHMVETINRQTRVQRRLQQELGREPTYEEIAIEMD 288
Query: 366 YLNMS-------------------QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
+L+ Q++V A + ++ L +E SL G +SY
Sbjct: 289 FLSPEDAKRYKEAIAKGKRLDPDLQRQVERAAAKVRRIQRLSQEPL-SLETPVGSEENSY 347
Query: 407 IADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDI 461
+ D +E++ G D A LK+++ + I+ L ERER+++ + +GL D T ED+
Sbjct: 348 LGDF-IEDDSLPGPADSASRRMLKEQMEE-ILDNLSERERKVLVMRFGLEDGVTRTLEDV 405
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 497
K ++RERVRQ+ AL KL+H R +K+ L
Sbjct: 406 GKEFNVTRERVRQIEAKALRKLRHPLRSRKLRDYLA 441
>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|440778274|ref|ZP_20957040.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp.
paratuberculosis S5]
gi|118164796|gb|ABK65693.1| sigma factor SigB [Mycobacterium avium 104]
gi|436721377|gb|ELP45512.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp.
paratuberculosis S5]
Length = 319
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 165/318 (51%), Gaps = 50/318 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL A V L+K+I+ GL + H L ++RLG + + +L++++ +
Sbjct: 26 YLNGIGKTALLNAAGEVELAKRIEAGLYAE-HLLETRKRLGEN---RKRDLEAVVRDGQA 81
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 82 ARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWW 141
Query: 316 IRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP HL H+ LG + E G+ +D
Sbjct: 142 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAAESGI--PID 199
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L S+ V + EA F D EA + N + E H+ I
Sbjct: 200 KINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAELLHTDI-------- 251
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE ++IRL +GLD + T + I K GLSRERVRQ
Sbjct: 252 ---------------RSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQ 296
Query: 475 VGLVALEKLKHAARKKKM 492
+ + KL++ R ++
Sbjct: 297 IERDVMSKLRNGERADRL 314
>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|389853714|ref|YP_006355958.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp.
cremoris NZ9000]
gi|414073798|ref|YP_006999015.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp.
cremoris UC509.9]
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]
gi|413973718|gb|AFW91182.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp.
cremoris UC509.9]
Length = 447
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 149/245 (60%), Gaps = 14/245 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 488 RKKKM 492
R K +
Sbjct: 439 RSKPL 443
>gi|339635193|ref|YP_004726834.1| RNA polymerase sigma factor [Weissella koreensis KACC 15510]
gi|420161189|ref|ZP_14667960.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella koreensis
KCTC 3621]
gi|338854989|gb|AEJ24155.1| RNA polymerase sigma factor [Weissella koreensis KACC 15510]
gi|394745939|gb|EJF34757.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella koreensis
KCTC 3621]
Length = 377
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 109/356 (30%), Positives = 182/356 (51%), Gaps = 45/356 (12%)
Query: 146 VTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEEL 205
V +G++ + + L+ K+ L + KQ S I + ++ Y+K + L
Sbjct: 61 VEAAGIAIVDEQGEPAMRALNNKKTALSEKELKQAAEAPSGIKINDPVRMYLKEIGRVSL 120
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNV 265
LT E V L+++I+ G + A+++L +N+
Sbjct: 121 LTGPEEVALAERIEEG-------------------------------DASAKQELAEANL 149
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 150 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 209
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR + L + G P+ + I ++++ +KVR+ +
Sbjct: 210 DQARTIRIPVHMVETINKLIRIQRSLLSDLGREPTPEEIGAEMDIATEKVRD-------I 262
Query: 385 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 263 LKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLES-VLDTLTDRE 320
Query: 442 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++RL +GL D T E++ K G++RER+RQ+ AL KL+H R K++ L
Sbjct: 321 ENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPTRSKQLRDFL 376
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/261 (34%), Positives = 155/261 (59%), Gaps = 18/261 (6%)
Query: 245 ELQSILM----ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
EL + LM + A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF
Sbjct: 335 ELHTRLMKARRQADRAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF 394
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 359
+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+
Sbjct: 395 EYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRSLVQELGREPT 454
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---P 416
+ IAE + + KVR KV + +E SL GE S++ D + N P
Sbjct: 455 PEEIAEKMELPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKNAVSP 506
Query: 417 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQV 475
V + L D+ + ++ TL RE +++R+ +G+ + T E++ + ++RER+RQ+
Sbjct: 507 AEVVININLADQTRR-VLATLTPREEKVLRMRFGIGETSDHTLEEVGQDFSVTRERIRQI 565
Query: 476 GLVALEKLKHAARKKKMEAML 496
AL KL+H +R K+++A +
Sbjct: 566 EAKALRKLRHPSRSKRLKAFV 586
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 133 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS IA+ +++ ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPQEIADEMDIPVERV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++N+
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAFTLLKEQLNE 304
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLGTLTEREQKVLKLRFGLEDGRARTLEEVGKVFNVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KM 492
K+
Sbjct: 364 KL 365
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 171/317 (53%), Gaps = 32/317 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD---DHKLRLKERLGSSLR----IS 242
++ ++ Y++ + LL E + L+++I L+L+ D L +RL S +
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 243 RP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 412
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 327
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 471
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 328 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 373
Query: 472 VRQVGLVALEKLKHAAR 488
+RQ+ AL KL+H R
Sbjct: 374 IRQIEAKALRKLRHPNR 390
>gi|398386426|ref|ZP_10544427.1| RNA polymerase sigma factor, sigma-70 family [Sphingobium sp. AP49]
gi|397718209|gb|EJK78801.1| RNA polymerase sigma factor, sigma-70 family [Sphingobium sp. AP49]
Length = 683
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 441 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 500
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 501 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 560
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 561 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 612
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 613 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 671
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 672 SRSRKMRSFL 681
>gi|428779237|ref|YP_007171023.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
gi|428693516|gb|AFZ49666.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
Length = 388
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 100/267 (37%), Positives = 148/267 (55%), Gaps = 31/267 (11%)
Query: 233 ERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 292
E +G +L P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +G
Sbjct: 132 EEVGQAL----PKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLG 187
Query: 293 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRL 351
L+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+
Sbjct: 188 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILS 247
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADN 410
+E P+ + IAE + M+ +K+R F P SL G+ S + D
Sbjct: 248 QELARKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD- 297
Query: 411 RVENNPWHGVDDWALKDEVNKL--------IIVTLGEREREIIRLYYGL-DKECLTWEDI 461
+ D +DEV+K ++ TL RER+++RL YGL D T E+I
Sbjct: 298 ------FIEADGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEI 351
Query: 462 SKRIGLSRERVRQVGLVALEKLKHAAR 488
+ ++RER+RQ+ AL KL+H R
Sbjct: 352 GQIFNVTRERIRQIEAKALRKLRHPNR 378
>gi|385682368|ref|ZP_10056296.1| RNA polymerase sigma factor [Amycolatopsis sp. ATCC 39116]
Length = 447
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 179/308 (58%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G L R +L+ I
Sbjct: 145 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRIAEEEGEKLATQMRRDLRWI 203
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 204 IRDGERAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFS 263
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 264 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 321
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
+++S +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 322 MDISPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 373
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 374 LLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 432
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 433 LRHPSRSQ 440
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 124/422 (29%), Positives = 203/422 (48%), Gaps = 75/422 (17%)
Query: 95 NSIEEESSELDYSVEALLLLQKSMLEKQWNLSFERTVLTDSPSKKTHKKVPVTCSGVSAR 154
NS + + E D +V L+ K E Q++ VLTD K K + G+
Sbjct: 13 NSEDFDQQEYDTAVGKLIRQYKKQKEIQYD------VLTD----KLAKPYELNADGID-- 60
Query: 155 QRRLNSKKKILSQNKSILQQNGSKQLRSMISPE-LIQNRLKG---------------YVK 198
N + + S++ NG R++ + E L QN +K Y+K
Sbjct: 61 ----NLLQNVEDAGISVVDANGDPDPRALKATEKLSQNAMKDTSAPTGVKINDPVRMYLK 116
Query: 199 GVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLARE 258
+ LLT E V+L+ +I+ G +A++
Sbjct: 117 EIGRVNLLTADEEVKLALRIEQG-------------------------------DEVAKQ 145
Query: 259 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 318
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ
Sbjct: 146 QLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQ 205
Query: 319 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 377
++RA+ + +RT+R+P H+ E + LIR + L++ G P + I ++M +K+RN
Sbjct: 206 AITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKIRN- 264
Query: 378 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIV 435
+ + +E SL GE S++ D + + D A + +L ++
Sbjct: 265 ------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLD 317
Query: 436 TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++
Sbjct: 318 TLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKD 377
Query: 495 ML 496
L
Sbjct: 378 FL 379
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/247 (36%), Positives = 153/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 126 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 185
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS + IA+ +N+++ KV
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQELGRDPSPEEIAKEMNITEDKV 245
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 430
R ++ + +E SL GE S++ D +E++ P L+++++
Sbjct: 246 R-------EILKIAQEPV-SLETPIGEEEDSHLGDF-IEDHEARAPAEEASFTLLREQLD 296
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL ERE+ ++RL +GLD T E++ ++ G++RER+RQ+ L KL+H +R
Sbjct: 297 E-VLKTLTEREQRVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRS 355
Query: 490 KKMEAML 496
KK++ L
Sbjct: 356 KKLKDYL 362
>gi|418329801|ref|ZP_12940847.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
14.1.R1.SE]
gi|419769577|ref|ZP_14295671.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-250]
gi|365229596|gb|EHM70739.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
14.1.R1.SE]
gi|383358196|gb|EID35657.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-250]
Length = 319
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 170/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL+ E + L+K+I+ G
Sbjct: 46 INDPVRMYLKEIGRVNLLSAQEEIELAKRIEQG--------------------------- 78
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK
Sbjct: 79 ----DEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKF 134
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 135 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 194
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 195 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 245
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 246 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 304
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 305 LRHPSRSKRLKDFM 318
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 171/307 (55%), Gaps = 21/307 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+K V LLT E V L+++I+ G + R G+ R EL+ ++ +
Sbjct: 116 YLKEVSRVPLLTAEEEVELAQRIERGRMAREELAR-----GNVSPKRRQELRRLIEDGWA 170
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
ARE L+ +N RLV+S+A++Y G DL+Q G IGL+R +KFD +G K STY WW
Sbjct: 171 AREHLITANSRLVISVAKKYMGRGVPFLDLIQEGNIGLIRATKKFDYRRGHKFSTYATWW 230
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ V+RA+ + RT+R+P H+ +++ + + +L ++ G PSV+ +AE L++ +KV
Sbjct: 231 IRQAVTRAIADQGRTIRVPVHMGDQINKLLRVQHQLTQRLGREPSVEELAEALDVPPRKV 290
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
N + + SL+ P + + + +E+ DD A L+ +
Sbjct: 291 ENMIQVARRPLSLE---------TPTDDEEDSVLGDFIEDEEAPPPDDTATYNLLRQHLE 341
Query: 431 KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL RE I++L YG LD + T E++ +++G++RERVRQ+ AL +L+H + +
Sbjct: 342 E-VLNTLPPREVRILQLRYGLLDGQAYTLEEVGRKMGVTRERVRQIEAQALSRLRHPSIR 400
Query: 490 KKMEAML 496
+K+ L
Sbjct: 401 RKLRDYL 407
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 152/251 (60%), Gaps = 19/251 (7%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 157 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 216
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 373
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 217 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 276
Query: 374 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 428
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 277 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 326
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 327 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 385
Query: 488 RKKKMEAMLVK 498
R K+++ + K
Sbjct: 386 RSKRLKDFVDK 396
>gi|295695448|ref|YP_003588686.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kyrpidia tusciae
DSM 2912]
gi|295411050|gb|ADG05542.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kyrpidia tusciae
DSM 2912]
Length = 379
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/245 (37%), Positives = 145/245 (59%), Gaps = 12/245 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 142 AKAALIKANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDFRKGFKFSTYATWW 201
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++MS KV
Sbjct: 202 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPTPEEIAEEMDMSPDKV 261
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 432
R ++ + +E SL GE S++ D + + L E +
Sbjct: 262 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIPDDDALAPADAAAYELLKEQLED 313
Query: 433 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
++ TL ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 314 VLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 373
Query: 492 MEAML 496
++ L
Sbjct: 374 LKDFL 378
>gi|451338960|ref|ZP_21909486.1| RNA polymerase sigma factor SigB [Amycolatopsis azurea DSM 43854]
gi|449418339|gb|EMD23930.1| RNA polymerase sigma factor SigB [Amycolatopsis azurea DSM 43854]
Length = 317
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 165/301 (54%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ A+ V L+K+I+ G+ H L E L R E+ +++ + +
Sbjct: 24 YLNGIGKTALLSAADEVELAKRIEAGV-FAQHMLDTTEGLTPK---RRSEMSALVRDGHV 79
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 80 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 139
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A + K+
Sbjct: 140 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGRDATHEELAAESGIPAHKI 199
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 200 SDLLDHSRDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESAVISGLLQDDLRR-VL 253
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE ++IRL YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 254 ATLDDRESQVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLRQGERADRLR 313
Query: 494 A 494
A
Sbjct: 314 A 314
>gi|443329181|ref|ZP_21057769.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442791126|gb|ELS00625.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 417
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 153/247 (61%), Gaps = 9/247 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 167 ELEKIQKDGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 226
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP ++ +
Sbjct: 227 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPCIEDL 286
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
+ L+M+ ++R + + SL+ + + G+ + A +P +
Sbjct: 287 SLELDMTAAQIREVLLRVPRSVSLEIKVGKEKDTELGDLLETESA------SPEETLMRE 340
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L++ L RERE+I++ +G E + +I + + LSRERVRQ+ AL+K
Sbjct: 341 SLQRDL-QLLLSELTSREREVIQMRFGFGGEKPFSLAEIGRCLELSRERVRQIEAKALQK 399
Query: 483 LKHAARK 489
L+ R+
Sbjct: 400 LRQPRRR 406
>gi|325971191|ref|YP_004247382.1| RpoD subfamily RNA polymerase sigma-70 subunit [Sphaerochaeta
globus str. Buddy]
gi|324026429|gb|ADY13188.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Sphaerochaeta
globus str. Buddy]
Length = 685
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/247 (36%), Positives = 150/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA++Y N G DLVQ G IGL++ +EKF+ KGFK STY WW
Sbjct: 449 AKDRLIRANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKGFKFSTYATWW 508
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R++ + +RT+R+P H+ E++ ++R +++ ++ G P+ + +AE L ++ KV
Sbjct: 509 IRQAITRSISDQARTIRVPVHMIEQINKVVRESRMLMQSLGREPTDEEVAEKLGWTESKV 568
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDEVN 430
+ V ++ RE SL GE S +I D VEN ++L E
Sbjct: 569 K-------AVKNVAREPI-SLETPVGEEEDSLLSDFIEDKEVENPATQTA--YSLLQEQL 618
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE+E++++ +GL D LT E++ L+RER+RQ+ AL +L+H R
Sbjct: 619 KDVLATLPAREQEVLKMRFGLEDGYSLTLEEVGLYFELTRERIRQIEAKALRRLRHPKRS 678
Query: 490 KKMEAML 496
+K++ +
Sbjct: 679 RKLKDFI 685
>gi|1710683|sp|P52328.1|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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWW 199
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA + +S +KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKV 259
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + D A LK+++
Sbjct: 260 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIEDQEALTPADAAAYELLKEQLED 311
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 312 -VLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 370
Query: 491 KMEAML 496
+++ L
Sbjct: 371 RLKDFL 376
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 100/297 (33%), Positives = 174/297 (58%), Gaps = 20/297 (6%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPE----LQSILMECSLAREKLVMSN 264
+V L + G+SL+D ++ LKE +G +S E +S+ + AR++L SN
Sbjct: 86 DVEHLDLSVPEGVSLEDPVRMYLKE-IGKIPLLSMEEEIELAKSMELGSEDARKRLAESN 144
Query: 265 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 324
+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ ++RA+
Sbjct: 145 LRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAI 204
Query: 325 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 383
+ +RT+R+P H+ E + L+R ++ L+E G P+ + IA ++ E + +
Sbjct: 205 ADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARADL-------PVERVSE 257
Query: 384 VFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGER 440
+ + +E SL GE S++ D ++N P L +++ + +++TL ER
Sbjct: 258 IMKMAQEPV-SLETPIGEEEDSHLGDFIQDDNVMVPQDAAAFTLLHEQLME-VLLTLTER 315
Query: 441 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
E+++++L +GLD T E++ ++ ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 316 EQKVLKLRFGLDDGRPRTLEEVGRQFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 372
>gi|81299460|ref|YP_399668.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 7942]
gi|93141306|sp|P38023.2|RPOD1_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD1
gi|81168341|gb|ABB56681.1| Sigma-70 factor [Synechococcus elongatus PCC 7942]
Length = 399
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 171/317 (53%), Gaps = 32/317 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD---DHKLRLKERLGSSLR----IS 242
++ ++ Y++ + LL E + L+++I L+L+ D L +RL S +
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 243 RP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 412
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 327
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 471
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 328 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 373
Query: 472 VRQVGLVALEKLKHAAR 488
+RQ+ AL KL+H R
Sbjct: 374 IRQIEAKALRKLRHPNR 390
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/241 (37%), Positives = 145/241 (60%), Gaps = 11/241 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ K+ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 376 AKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 435
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 373
IRQ +SRA+ + +RT+R+P H+ E + I N +R L+E+G P +++IAE + + K
Sbjct: 436 IRQAISRAIADQARTIRIPIHMIETINRI-NKIMRKYLQEEGKEPDIEKIAEEVGLPVDK 494
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLI 433
V+N + + SL+ P NG G +++ P + LK +++ +
Sbjct: 495 VKNVIKITKEPISLEA---PIGNGEDG--KFGDFVEDKASLGPMDSILKEDLKAQIDD-V 548
Query: 434 IVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
+ L ERE+ +IR+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH +K
Sbjct: 549 LDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRK 608
Query: 492 M 492
+
Sbjct: 609 L 609
>gi|421873893|ref|ZP_16305502.1| RNA polymerase sigma factor rpoD [Brevibacillus laterosporus GI-9]
gi|372457004|emb|CCF15051.1| RNA polymerase sigma factor rpoD [Brevibacillus laterosporus GI-9]
Length = 374
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYQKGYKFSTYATWW 196
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++++ +KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAEKMDLTPEKV 256
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEALAPSDAAAYELLKEQLE 307
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 490 KKMEAML 496
K+++ L
Sbjct: 367 KRLKDFL 373
>gi|333394972|ref|ZP_08476791.1| RNA polymerase sigma factor RpoD, partial [Lactobacillus
coryniformis subsp. coryniformis KCTC 3167]
gi|420144890|ref|ZP_14652369.1| RNA polymerase sigma factor [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
gi|398403447|gb|EJN56689.1| RNA polymerase sigma factor [Lactobacillus coryniformis subsp.
coryniformis CECT 5711]
Length = 371
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 146/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 134 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M KV
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTDKV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + + D A LK+++
Sbjct: 254 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLES 305
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 306 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 364
Query: 491 KMEAML 496
+++ L
Sbjct: 365 QLKDFL 370
>gi|309792450|ref|ZP_07686915.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308225522|gb|EFO79285.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 311
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 107/303 (35%), Positives = 163/303 (53%), Gaps = 24/303 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSL-----DDHKLRLKERLGSSLRISRPELQSIL 250
Y+ + E LLT + L+ +I+ G D+H ER L+ +
Sbjct: 18 YLNEIGDEPLLTFDQEQHLAAQIEAGREAARRLADEHPFTPSERW---------RLEQQV 68
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
+ AR +L+ SN+RLV+SIA+RY G + DL+Q G +GL+R ++KFD S+G K ST
Sbjct: 69 HAGANARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSLGLMRAVDKFDPSRGLKFST 128
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNM 369
Y +WIRQ V RA+ ++ RT+RLP HL ERL + A+ RL ++ P+ + +A+ L +
Sbjct: 129 YATYWIRQSVGRAIADHGRTVRLPVHLGERLSRLARARQRLTQRLDRDPTPEEVADELGI 188
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEV 429
+ +V A +A SLD G E + + +E P V L+D++
Sbjct: 189 TTDQVTRAEQAALTPASLDETHSDDGTGALAE-----VISDPLEPTPLDHVAHGLLRDDL 243
Query: 430 NKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVALEKLK--HA 486
+ + L +RER I+ L YGL+ E LT E I +R+ L+RERVRQ+ AL KL+ H
Sbjct: 244 CE-AMSHLTQRERSILNLRYGLEGETALTLEQIGQRLSLTRERVRQLESEALRKLRDPHL 302
Query: 487 ARK 489
R+
Sbjct: 303 GRR 305
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 153/250 (61%), Gaps = 16/250 (6%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 344 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 403
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 404 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 463
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 427
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 464 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 514
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 515 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 573
Query: 487 ARKKKMEAML 496
+R KK+++ +
Sbjct: 574 SRAKKLKSFV 583
>gi|347755938|ref|YP_004863502.1| RNA polymerase sigma factor RpoD/sigma-70 family RNA polymerase
sigma factor [Candidatus Chloracidobacterium
thermophilum B]
gi|347588456|gb|AEP12986.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Candidatus
Chloracidobacterium thermophilum B]
Length = 558
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/268 (34%), Positives = 157/268 (58%), Gaps = 15/268 (5%)
Query: 234 RLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNM--GADMADLVQGGLI 291
R+ SLR E+ S E AR +++ +N+RLV+SIA+ Y N G +DL+Q G I
Sbjct: 297 RIKGSLR----EIFSSTEEAEKARREMIEANLRLVVSIAKNYINRSRGLQFSDLIQEGNI 352
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLR 350
GL+R +EKFD +G+K STY WWIRQ V+RA+ + RT+R+P H+ E + ++R A+L
Sbjct: 353 GLMRAVEKFDYRRGYKFSTYATWWIRQAVTRAIADQGRTIRVPVHMVETINKIVRTARLM 412
Query: 351 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
++E G P+ + +A+ ++ KVR A + + SL+ + G GE++ ++
Sbjct: 413 VQELGREPTHEELAQRTDLPVVKVRQALKIAQEPISLE-----TPIGDDGESNLGSFIED 467
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL--TWEDISKRIGLS 468
R NP + L+ E ++ TL +RE +I+++ +GLD + T E++ + ++
Sbjct: 468 RNSLNPAEMIVGKGLR-EATLEVLSTLTQREAQILKMRFGLDGDGQERTLEEVGRHFSVT 526
Query: 469 RERVRQVGLVALEKLKHAARKKKMEAML 496
RER+RQ+ AL KL+H +R +K++
Sbjct: 527 RERIRQIEAKALRKLRHPSRSRKLKTFF 554
>gi|336435045|ref|ZP_08614763.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
1_4_56FAA]
gi|336001938|gb|EGN32065.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
1_4_56FAA]
Length = 372
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 135 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ L+M +V
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAKELDMPVDRV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 255 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 306
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 307 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 365
Query: 491 KMEAML 496
K+ L
Sbjct: 366 KLRDYL 371
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 429 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 488
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 489 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 548
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 549 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAVIPVDAAIQANLKE 600
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 601 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 659
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 660 SRSRKMRSFL 669
>gi|239631415|ref|ZP_04674446.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp.
paracasei 8700:2]
gi|409997357|ref|YP_006751758.1| RNA polymerase sigma factor rpoD [Lactobacillus casei W56]
gi|417983523|ref|ZP_12624159.1| RNA polymerase sigma factor [Lactobacillus casei 21/1]
gi|417986865|ref|ZP_12627430.1| RNA polymerase sigma factor [Lactobacillus casei 32G]
gi|418005214|ref|ZP_12645210.1| RNA polymerase sigma factor [Lactobacillus casei UW1]
gi|239525880|gb|EEQ64881.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp.
paracasei 8700:2]
gi|406358369|emb|CCK22639.1| RNA polymerase sigma factor rpoD [Lactobacillus casei W56]
gi|410524599|gb|EKP99507.1| RNA polymerase sigma factor [Lactobacillus casei 32G]
gi|410527792|gb|EKQ02654.1| RNA polymerase sigma factor [Lactobacillus casei 21/1]
gi|410547467|gb|EKQ21700.1| RNA polymerase sigma factor [Lactobacillus casei UW1]
Length = 352
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 115 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 174
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 175 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 234
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 235 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLE 285
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 286 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 344
Query: 490 KKMEAML 496
K+++ L
Sbjct: 345 KQLKDFL 351
>gi|452991307|emb|CCQ97365.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 374
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/287 (35%), Positives = 167/287 (58%), Gaps = 16/287 (5%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMECS--LAREKLVMSNVRLVMSIAQ 273
+ G+++DD ++ LKE L + E++ + ME +A++KL +N+RLV+SIA+
Sbjct: 95 VPKGINVDDPVRMYLKEIGKIPLLTAEEEVELAQRMEAGDEIAKKKLAEANLRLVVSIAK 154
Query: 274 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 333
RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+
Sbjct: 155 RYVGRGMLFLDLIQEGNLGLMKAVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRI 214
Query: 334 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 392
P H+ E + L+R + ++E G P+ + IA+ +NM +KVR ++ + +E
Sbjct: 215 PVHMVETINKLVRVQRQLVQELGRDPTPEEIAKEMNMEVEKVR-------EIMKIAQEPV 267
Query: 393 PSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIV--TLGEREREIIRLYYG 450
SL GE S++ D ++N D +LI V TL RE++++RL +G
Sbjct: 268 -SLETPIGEEEDSHLGDFIEDDNALAPADAATYIMLREQLIDVLDTLTPREQKVLRLRFG 326
Query: 451 LDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
LD T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 327 LDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDFL 373
>gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942]
Length = 384
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 171/317 (53%), Gaps = 32/317 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD---DHKLRLKERLGSSLR----IS 242
++ ++ Y++ + LL E + L+++I L+L+ D L +RL S +
Sbjct: 73 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 132
Query: 243 RP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
P E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 133 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 192
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 193 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 252
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 412
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 253 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 312
Query: 413 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 471
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 313 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 358
Query: 472 VRQVGLVALEKLKHAAR 488
+RQ+ AL KL+H R
Sbjct: 359 IRQIEAKALRKLRHPNR 375
>gi|383785810|ref|YP_005470379.1| sigma-70 family RNA polymerase sigma factor [Fervidobacterium
pennivorans DSM 9078]
gi|383108657|gb|AFG34260.1| RNA polymerase sigma factor, sigma-70 family [Fervidobacterium
pennivorans DSM 9078]
Length = 371
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 87/241 (36%), Positives = 148/241 (61%), Gaps = 16/241 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+E+L++SN+RLV+S+A+RY G DL+Q G +GL++ +EKFD SKG+K STY WW
Sbjct: 129 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 188
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + I+ K ++E G P ++ IAE + +K+
Sbjct: 189 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYMQEHGEEPPLEYIAEQVGKPVEKI 248
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDEVN 430
++ + SL+ GE S ++AD V +P +K+E++
Sbjct: 249 EEILQSTPETLSLETPV--------GEEEDSSMADFVADESV-GSPKKEAIRTLMKEEID 299
Query: 431 KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
KL + TL +RE+ ++++ YG LD + T E++ + G++RER+RQ+ + AL KL+H +R
Sbjct: 300 KL-LETLNDREKMVLKMRYGILDGKPKTLEEVGQYFGVTRERIRQIEVKALRKLRHPSRS 358
Query: 490 K 490
+
Sbjct: 359 R 359
>gi|312143990|ref|YP_003995436.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halanaerobium
hydrogeniformans]
gi|311904641|gb|ADQ15082.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium
hydrogeniformans]
Length = 360
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++LV +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 123 AKQQLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKAVEKFDYTKGYKFSTYATWW 182
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R++ + +RT+R+P H+ E + LIR ++ L+EKG P + I E +++S +KV
Sbjct: 183 IRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKGREPKPEEIGEEMDISAEKV 242
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + + P LK++++
Sbjct: 243 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDEDSPAPASAASYILLKEQLDG 294
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+ ++ L +G+ D T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 295 -VLDTLTEREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSK 353
Query: 491 KMEAML 496
K++ L
Sbjct: 354 KLKDYL 359
>gi|427419588|ref|ZP_18909771.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425762301|gb|EKV03154.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 391
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 98/278 (35%), Positives = 159/278 (57%), Gaps = 11/278 (3%)
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNVRLV 268
A+V LSKK+ G L RL+ + ++L S + Q L A+ K++ SN+RLV
Sbjct: 110 ADVEALSKKM--GEELKRTPTRLE--MANALHCSEADFQHRLQYARSAKRKMIRSNLRLV 165
Query: 269 MSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 328
+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWWIRQG++R + ++
Sbjct: 166 VSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWWIRQGITRTIANDA 225
Query: 329 RTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 387
RT+RLP H+ E+L ++ + L ++ TP+ +A L+++ +++R+ + K SL
Sbjct: 226 RTIRLPIHIVEKLNKLKKTQRELRKQLNRTPTEAELAAELDLTPEQLRSLQQVRRKSLSL 285
Query: 388 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRL 447
+ G +T + ++ +P +++ ++ E++ ++ L ERE++II L
Sbjct: 286 NHRV-----GKGEDTELMELLEDGSTLSPESRMNESMMRQEISDVLTEVLTEREKDIISL 340
Query: 448 YYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
YGL E T E++ LSRERVRQ+ A+ KL+
Sbjct: 341 RYGLTTGEPHTLEEVGGIFNLSRERVRQIQTKAMRKLR 378
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 151/245 (61%), Gaps = 12/245 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EK+D SKGFK STY WW
Sbjct: 135 AKKRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++R++ + +RT+R+P H+ E + LIR ++ L+E G PS + +AE L+M ++V
Sbjct: 195 IRQAITRSIADQARTIRIPVHMVETINRLIRTSRQLLQELGREPSAEELAEKLDMPVERV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVNKL 432
R ++ + ++ SL GE S++ D +++ VD + L E
Sbjct: 255 R-------EIMKISQDPV-SLETPIGEEEDSHLGDFIQDDHVQVPVDAATYTLLHEQLME 306
Query: 433 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
++ TL +RE++++RL +GLD T E++ + ++RER+RQ+ AL KL+H +R +K
Sbjct: 307 VLDTLTDREQKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSRK 366
Query: 492 MEAML 496
++ L
Sbjct: 367 LKDYL 371
>gi|18202317|sp|P58290.1|RPOD_LACLC RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-42
Length = 364
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 149/245 (60%), Gaps = 14/245 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 185 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 244
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 245 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 296
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 297 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 355
Query: 488 RKKKM 492
R K +
Sbjct: 356 RSKPL 360
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 141 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 200
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++++ +KV
Sbjct: 201 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDVATEKV 260
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R+ + + +E SL GE S++ D +N D A LK+++
Sbjct: 261 RD-------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLES 312
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 313 -VLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 371
Query: 491 KMEAML 496
++ L
Sbjct: 372 QLRDFL 377
>gi|428312164|ref|YP_007123141.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
gi|428253776|gb|AFZ19735.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
Length = 373
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 176/319 (55%), Gaps = 36/319 (11%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR--------- 240
++ ++ Y++ + LL E + L++KI L L+ R+++RL L
Sbjct: 62 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIRDRLSDQLEREPQDSEWA 117
Query: 241 --ISRPELQSI---LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
++ P LQ+ L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 118 TEVNMP-LQAFRHRLYVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 176
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 354
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E
Sbjct: 177 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEM 236
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 413
G P+ + IA+ + M+ +K+R F P SL G+ S + D +E
Sbjct: 237 GRKPTEEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 286
Query: 414 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++R
Sbjct: 287 ADGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 345
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 346 ERIRQIEAKALRKLRHPNR 364
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE L+M ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEELDMPVERV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLKEQLGE 304
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLDTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KM 492
K+
Sbjct: 364 KL 365
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/296 (37%), Positives = 167/296 (56%), Gaps = 22/296 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ + +E LLT + +L++ I G R ERL + + E + + + +
Sbjct: 18 YLNEIGAEPLLTFEQEQQLAQTIAQGR-------RAAERLTNEPSLHSTEKKRLAAQVAA 70
Query: 256 ---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR +L+ SN+RLV+SIA+RY G + DL+Q G IGL+R ++KFD+ +G K STY
Sbjct: 71 GEQARAQLINSNLRLVVSIARRYQGHGLTLLDLIQEGSIGLMRAVDKFDAGRGLKFSTYA 130
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPSVDRIAEYLNM 369
+WIRQ + RA+ ++SRT+RLP HL ERL R A+LR E + P+++ +A +
Sbjct: 131 TYWIRQSIGRAIADHSRTVRLPVHLGERLS--RLARLRQELAQQLDREPTLEELANAAGL 188
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEV 429
S ++V A +A SLD EA G S I + ++ P+ V + L+ +V
Sbjct: 189 SVEQVERAEQAGLAPTSLD-EAHTEDGG----GALSEILTDPLQPTPFDEVSEGMLQADV 243
Query: 430 NKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 484
+ + L RER I+RL YGLD E + T E I +R+ L+RERVRQ+ AL KL+
Sbjct: 244 -QAALSQLSPRERNILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEYEALRKLR 298
>gi|339010526|ref|ZP_08643096.1| RNA polymerase sigma factor RpoD [Brevibacillus laterosporus LMG
15441]
gi|338772681|gb|EGP32214.1| RNA polymerase sigma factor RpoD [Brevibacillus laterosporus LMG
15441]
Length = 374
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYQKGYKFSTYATWW 196
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++++ +KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAEKMDLTPEKV 256
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEALAPSDAAAYELLKEQLE 307
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 490 KKMEAML 496
K+++ L
Sbjct: 367 KRLKDFL 373
>gi|172037252|ref|YP_001803753.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC
51142]
gi|354553864|ref|ZP_08973170.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171698706|gb|ACB51687.1| group 2 sigma-70 RNA polymerase sigma factor [Cyanothece sp. ATCC
51142]
gi|353554581|gb|EHC23971.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 297
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 172/301 (57%), Gaps = 23/301 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y++ + LL+ E ++L+++I+ L L + KE L E + I+ +
Sbjct: 10 VRHYLQSIGKTPLLSGPEEIKLAEEIQAMLPLLE-----KEALSK-------EEEKIVAK 57
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
AR+K++ +N+RLV+SIA++Y N G + DL+Q G +GL+RG+EKFD S+G+K STY
Sbjct: 58 GQRARDKMIQANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKFDPSRGYKFSTYA 117
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
YWWIRQG++RA+ E SRT+RLP H++E L R + L K G P+ IAE +++S
Sbjct: 118 YWWIRQGITRAIAEQSRTIRLPIHINENLNKYRKSIRELTLKLGRKPTQQEIAENMDISV 177
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY--IADNRVENNPWHGVDDWALKDEV 429
K+R +A K S SLN + E H + + +P V ++
Sbjct: 178 DKLRFLQQAAFKTKS------RSLNIVIDENHTELGQLLPDEDSVSPSDFVKQQEKISQI 231
Query: 430 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
N++ + L R++E+I L +GL D + L+++ I ++ G+S ER RQ+ AL L+ +
Sbjct: 232 NRM-LENLSPRQKEVIILRFGLRDGKQLSYKAIGEQCGISHERARQIYSRALRILRKQSS 290
Query: 489 K 489
K
Sbjct: 291 K 291
>gi|347753174|ref|YP_004860739.1| RpoD subfamily RNA polymerase sigma-70 subunit [Bacillus coagulans
36D1]
gi|347585692|gb|AEP01959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
coagulans 36D1]
Length = 377
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKAVEKFDYKKGYKFSTYATWW 199
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IAE +++S KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGREPTPEEIAEEMDISPDKV 259
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 260 R-------EIIKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 310
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 311 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 369
Query: 490 KKMEAML 496
K+++ L
Sbjct: 370 KRLKDFL 376
>gi|113475621|ref|YP_721682.1| RNA polymerase subunit sigma 28 [Trichodesmium erythraeum IMS101]
gi|110166669|gb|ABG51209.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101]
Length = 410
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/254 (36%), Positives = 149/254 (58%), Gaps = 9/254 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I E AR +++ +N+RLV+SIA++Y N G ++ DL+Q G +GL R +EKFD +
Sbjct: 160 ELEQIQTEGIEARHQMISTNLRLVVSIAKKYQNRGVELLDLIQEGTLGLERAVEKFDPQR 219
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ + ++ +EKG T V+ I
Sbjct: 220 GYRFSTYAYWWIRQGITRAIATQSRTIRLPIHVSEKLNKIKKVQQKIFQEKGYTAKVEEI 279
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L ++ +VR I SL+ + + GE + A +P +
Sbjct: 280 ARELKITAAQVREVLVKIPHSVSLETKVGRDRDTELGELLETKDA------SPEEMLIRE 333
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L + +L++ L +RER +I + YGL D + +I+ + LSRERVRQ+ + AL K
Sbjct: 334 SLVQALKELLL-DLTQRERYVITMRYGLEDGRACSLSEIASALKLSRERVRQIEVKALHK 392
Query: 483 LKHAARKKKMEAML 496
L+ + +++ L
Sbjct: 393 LRQPKFRNQIQDYL 406
>gi|456011651|gb|EMF45388.1| RNA polymerase sigma factor RpoD [Planococcus halocryophilus Or1]
Length = 327
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 90 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 149
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 150 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPSPEEIGEEMDLLPEKV 209
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 210 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 260
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 261 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 319
Query: 490 KKMEAML 496
K+++ L
Sbjct: 320 KRLKDFL 326
>gi|295110289|emb|CBL24242.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus obeum A2-162]
Length = 376
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/245 (37%), Positives = 148/245 (60%), Gaps = 12/245 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 139 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 198
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE + M ++V
Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMKMPVERV 258
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R ++ + +E SL GE S++ D ++N D A +LI
Sbjct: 259 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLIE 310
Query: 435 V--TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 491
V TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +K
Sbjct: 311 VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRK 370
Query: 492 MEAML 496
++ L
Sbjct: 371 LKDYL 375
>gi|449017038|dbj|BAM80440.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 721
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/340 (30%), Positives = 170/340 (50%), Gaps = 61/340 (17%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---LRISR------ 243
++ Y+ + +LL E V LS+++ + L+ + +E+ G S L +R
Sbjct: 408 IRSYLYEIGRYQLLQPGEEVELSRQVCVLMDLERFQKSFREQHGKSPTELEWARGCGYGE 467
Query: 244 --PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 301
L+ + + A+E++V +N+RLV+SIA+RY N G + DL+Q G IGL+RG+EKFD
Sbjct: 468 DVEALRKHIRDGRSAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIRGVEKFD 527
Query: 302 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 360
+ +GF+ STY WWIRQ ++RA+ ++SR++RLP H+H+ + +IR L + G P
Sbjct: 528 AGRGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISMIRKHTKALHTQLGRPPRE 587
Query: 361 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
D I E + + K R E + SL+ P HG
Sbjct: 588 DEICESVGIDIAKYRLIMECSQNIVSLE--------------------------TPMHGT 621
Query: 421 DDW---------------------ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTW 458
DD L+D + K ++ L RERE+IR+ +GL D T
Sbjct: 622 DDIHNLGESLISPEERSEDTVSRDTLRDSIEK-VLRCLTAREREVIRMRFGLADGRPRTL 680
Query: 459 EDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVK 498
E++ + ++RER+RQ+ AL+KL+ A ++ L +
Sbjct: 681 EEVGVKFNVTRERIRQIESKALKKLRIPAENNFLDEYLTE 720
>gi|19862496|sp|Q04506.2|RPOD_LACLA RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-42
Length = 386
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 207 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 266
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 267 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 318
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 319 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 377
Query: 488 RKKKMEAML 496
R K + +
Sbjct: 378 RSKPLRDFM 386
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 174/318 (54%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD-------DHKLRL------KERLG 236
++ ++ Y++ + LL E + L++KI L L+ +H+ R+ E G
Sbjct: 64 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAG 123
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
L+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 124 MPLK----DFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 179
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G
Sbjct: 180 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELG 239
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 240 RKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEA 289
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 290 DGETPEDQVSKSLLREDLEN-VLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 348
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 349 RIRQIEAKALRKLRHPNR 366
>gi|262199546|ref|YP_003270755.1| RpoD subfamily RNA polymerase sigma-70 subunit [Haliangium
ochraceum DSM 14365]
gi|262082893|gb|ACY18862.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Haliangium
ochraceum DSM 14365]
Length = 697
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 86/246 (34%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 459 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 518
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IAE + + KV
Sbjct: 519 IRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLVQELGREPTPEEIAERMELPLDKV 578
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R KV + +E SL GE S++ D ++ +P V L ++ K
Sbjct: 579 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKSVTSPSDAVISVNLAEQTRK 630
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R K
Sbjct: 631 -VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSK 689
Query: 491 KMEAML 496
+++A +
Sbjct: 690 RLKAFV 695
>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 = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/274 (33%), Positives = 162/274 (59%), Gaps = 21/274 (7%)
Query: 235 LGSSLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 287
+ S+ ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 402 IASATGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 461
Query: 288 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 346
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 462 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRC 521
Query: 347 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 406
++ L ++G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 522 SRQFLHDQGREPTPEEMAEKLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 573
Query: 407 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 462
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 574 LGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 632
Query: 463 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 633 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 666
>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 = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 166/301 (55%), Gaps = 12/301 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LLT A+ V L+K+I+ G+ H L E L R EL++++ + +
Sbjct: 24 YLNGIGKTALLTAADEVELAKRIEAGV-FAQHMLDTAEDLTPQ---RRKELRALVRDGHV 79
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGFK STY WW
Sbjct: 80 AKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGFKFSTYATWW 139
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + RT+RLP HL E++ + + L ++ G + + ++ + K+
Sbjct: 140 IRQAITRGMADQGRTIRLPVHLVEQVNKLARIRRDLHQQLGRDATHEELSAESGIPVHKI 199
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ + SLD + G+ +I D+ + V L+D++ + ++
Sbjct: 200 SDLLDQSRDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESAVISGLLQDDLRR-VL 253
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RE+ +IRL YGLD + T + I K GLSRERVRQ+ + KL+ R ++
Sbjct: 254 ATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMAKLRQGERADRLR 313
Query: 494 A 494
A
Sbjct: 314 A 314
>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 = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 141/246 (57%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR KL +N+RLV+SIA+RY G + DL+Q G +GL+R ++KF + KGFK STY WW
Sbjct: 272 ARRKLTEANLRLVVSIAKRYTGRGLTLLDLIQEGNLGLMRAVDKFQTHKGFKFSTYATWW 331
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RAL +++RT+RLP HL E L + R A+ +E G P+ +A +NM ++
Sbjct: 332 IRQAITRALADHARTIRLPVHLVETLNRVSRVARQLTQELGREPTTSELAAAVNMPLDRL 391
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R +A SL+ G+ S + D + +D A L+++V
Sbjct: 392 RELLQAAQDPVSLEAPV--------GQEEESTLGDFLEDERAVAPLDAAALSLLREQVQS 443
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
L + TL ERER ++ + +GL D + T E++ + G++RERVRQ+ AL KL+H R +
Sbjct: 444 L-LATLTERERRVLAMRFGLEDGQTYTLEEVGRAFGVTRERVRQIEAKALRKLRHPQRAR 502
Query: 491 KMEAML 496
+ L
Sbjct: 503 ALRDFL 508
>gi|311031650|ref|ZP_07709740.1| RNA polymerase sigma factor RpoD [Bacillus sp. m3-13]
Length = 374
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 196
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IAE ++++ KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIAEDMDLTPDKV 256
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 307
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 490 KKMEAML 496
K+++ L
Sbjct: 367 KRLKDFL 373
>gi|341820065|emb|CCC56296.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella
thailandensis fsh4-2]
Length = 378
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 107/352 (30%), Positives = 180/352 (51%), Gaps = 45/352 (12%)
Query: 146 VTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEEL 205
+ +G+S + L K+ L + KQ + I + ++ Y+K + L
Sbjct: 62 IESAGISVVDENGEPTARALENKKTKLSEKELKQAADAPTGMKINDPVRMYLKEIGRVSL 121
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNV 265
LT E V L+++I++G A+++L +N+
Sbjct: 122 LTGKEEVALAERIESG-------------------------------DETAKQELAEANL 150
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 151 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 210
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR + L++ G P+ + I ++++ KVR+ +
Sbjct: 211 DQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDVATDKVRD-------I 263
Query: 385 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 264 LKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLES-VLDTLTDRE 321
Query: 442 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++
Sbjct: 322 ENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQL 373
>gi|390439227|ref|ZP_10227637.1| putative RNA polymerase sigma-C factor [Microcystis sp. T1-4]
gi|389837354|emb|CCI31761.1| putative RNA polymerase sigma-C factor [Microcystis sp. T1-4]
Length = 414
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 158/250 (63%), Gaps = 9/250 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL + ++KFD SK
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLEQAVKKFDPSK 223
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATQSRLIRLPVHITEKLNKIKKAQRKISQMRGRTATVEEI 283
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A+ L ++ ++VR + + SL+ + G +T + ++ ++ H VD+
Sbjct: 284 AQELALTPEEVRELLMKVPRSVSLEIKV-----GKEKDTELLDLLESEAVSSENHFVDE- 337
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RERE+I L YG LD + + I + + LS ERVRQ+ AL+K
Sbjct: 338 SLQRDIREL-LADLTTREREVIELRYGFLDGQSHSLAAIGRTLELSPERVRQIESKALQK 396
Query: 483 LKHAARKKKM 492
L+ R+ ++
Sbjct: 397 LRQPQRRNQI 406
>gi|1588486|prf||2208419B RNA polymerase sigma factor
Length = 391
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 174/318 (54%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLD-------DHKLRL------KERLG 236
++ ++ Y++ + LL E + L++KI L L+ +H+ R+ E G
Sbjct: 80 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAG 139
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
L+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 140 MPLK----DFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 195
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G
Sbjct: 196 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELG 255
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 256 RKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEA 305
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 306 DGETPEDQVSKSLLREDLEN-VLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 364
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 365 RIRQIEAKALRKLRHPNR 382
>gi|428773684|ref|YP_007165472.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
stanieri PCC 7202]
gi|428687963|gb|AFZ47823.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
stanieri PCC 7202]
Length = 328
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 96/305 (31%), Positives = 177/305 (58%), Gaps = 22/305 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLRISR 243
++ Y++ + LL+H + + K+++ +SL K L E L + +
Sbjct: 20 VRTYLQEIGKVPLLSHEQEIVFGKQVQIMMSLYAQKEELAENLDREPTLEEWAQAAEKTP 79
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL+ ++ + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 AELKKLIHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPT 139
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KGFK STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G +P+
Sbjct: 140 KGFKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSPNQSE 199
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 420
IA L++ ++R + FS+ R+ SL+ G+ + +++ + +P +
Sbjct: 200 IANALDLEPSQIR-------EYFSIARQPI-SLDVKVGDNQDTELSELLEDEGLSPDKYI 251
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
++ +++KL + L +++E++RL +GLD + L+ I +R+G+SRERVRQ+ A
Sbjct: 252 TQELMRQDLHKL-LDELTTQQQEVVRLRFGLDDGKELSLAKIGQRMGISRERVRQLEQQA 310
Query: 480 LEKLK 484
L L+
Sbjct: 311 LAHLR 315
>gi|350566296|ref|ZP_08934981.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus
indolicus ATCC 29427]
gi|348662922|gb|EGY79550.1| DNA-directed RNA polymerase sigma subunit RpoD [Peptoniphilus
indolicus ATCC 29427]
Length = 370
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/247 (36%), Positives = 147/247 (59%), Gaps = 12/247 (4%)
Query: 254 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 313
+LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY
Sbjct: 131 NLAKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVEKFDYTKGFKFSTYAT 190
Query: 314 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 372
WWIRQ ++RA+ + +RT+R+P H+ E + L+R + ++E G PS + IA+ +++ +
Sbjct: 191 WWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELGRDPSPEEIAQEMSLDVE 250
Query: 373 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVN 430
KVR + + SL+ GE S++ D + D + L E
Sbjct: 251 KVREIQKIAQEPVSLETPI--------GEEEDSHLGDFIPDEEILSPSDAATFTLLKEQL 302
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ ++ TL ERE++++ L +GL D T E++ K ++RER+RQ+ AL KL+H +R
Sbjct: 303 ETVLETLTEREKKVLTLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRS 362
Query: 490 KKMEAML 496
KK++ L
Sbjct: 363 KKLKDFL 369
>gi|154502790|ref|ZP_02039850.1| hypothetical protein RUMGNA_00604 [Ruminococcus gnavus ATCC 29149]
gi|336431160|ref|ZP_08611014.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
2_1_58FAA]
gi|153796673|gb|EDN79093.1| RNA polymerase sigma factor RpoD [Ruminococcus gnavus ATCC 29149]
gi|336020082|gb|EGN49799.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
2_1_58FAA]
Length = 371
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 134 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 193
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ L+M ++V
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 253
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 254 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 305
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 306 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 364
Query: 491 KM 492
K+
Sbjct: 365 KL 366
>gi|383454302|ref|YP_005368291.1| RNA polymerase sigma factor RpoD [Corallococcus coralloides DSM
2259]
gi|380734228|gb|AFE10230.1| RNA polymerase sigma factor RpoD [Corallococcus coralloides DSM
2259]
Length = 706
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 468 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 527
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 528 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 587
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 588 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 638
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 639 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 697
Query: 490 KKMEAML 496
K++ + +
Sbjct: 698 KRLRSFV 704
>gi|338708468|ref|YP_004662669.1| RNA polymerase sigma-70 subunit RpoD [Zymomonas mobilis subsp.
pomaceae ATCC 29192]
gi|336295272|gb|AEI38379.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
pomaceae ATCC 29192]
Length = 667
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 150/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A+ ++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPTPEELAERLSMP 544
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 596
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 108/310 (34%), Positives = 172/310 (55%), Gaps = 28/310 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LLT E V L+K I+ GL +D KL K+ G I PEL+ ++ E
Sbjct: 76 YLREIGKVPLLTAEEEVELAKAIEAGLFAED-KLCEKKAAG----IECPELEDLVWEGIR 130
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY WW
Sbjct: 131 AKQRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + L+R + ++ G P+ + IA+ +++ ++V
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLHQDLGREPTPEEIAKEMDLPVERV 250
Query: 375 ----RNATEAIGKVFSLDREAFPSLNGLPGETHHS---YIADNRVENNPWHGVDDWALKD 427
R A E + SL GE +I D P L+D
Sbjct: 251 VEIQRIAQEPV------------SLQSPIGEEDSDLGDFIEDADA-VVPLEAAAFILLQD 297
Query: 428 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
++ I+ TL ERE+ II+L +GL D T E++ + G++RER+RQ+ L KL+H
Sbjct: 298 HLDD-ILSTLSEREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKLRHP 356
Query: 487 ARKKKMEAML 496
R + + L
Sbjct: 357 TRAQVLRDYL 366
>gi|403013|emb|CAA50594.1| major sigma factor [Lactococcus lactis]
Length = 340
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 149/245 (60%), Gaps = 14/245 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 101 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 160
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 161 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 220
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 221 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 272
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 273 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 331
Query: 488 RKKKM 492
R K +
Sbjct: 332 RSKPL 336
>gi|338734243|ref|YP_004672716.1| rNA polymerase sigma factor rpoD [Simkania negevensis Z]
gi|336483626|emb|CCB90225.1| rNA polymerase sigma factor rpoD [Simkania negevensis Z]
Length = 554
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 148/244 (60%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ ++V SN+RLV+SIA++Y N G DL+Q G +GL++ +EKF+ +G+K STY WW
Sbjct: 312 AKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 371
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RA+ + +RT+R+P H+ E + ++R AK + E G P+ + +A L ++ ++V
Sbjct: 372 IRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGREPTPEELATELGLTPERV 431
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHH-SYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + SL E G GE+ ++ D +E +P LKD++N+ +
Sbjct: 432 REIYKIAQHPISLQAEV-----GDSGESQFGDFLEDTTIE-SPDEATGYSILKDKMNE-V 484
Query: 434 IVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL +RER ++ +G LD + T E++ R ++RERVRQ+ AL K++H R K++
Sbjct: 485 LSTLTDRERTVLIERFGLLDGKPKTLEEVGVRFKVTRERVRQIEAKALRKMRHPTRSKQL 544
Query: 493 EAML 496
+A L
Sbjct: 545 QAFL 548
>gi|291546785|emb|CBL19893.1| RNA polymerase, sigma 70 subunit, RpoD [Ruminococcus sp. SR1/5]
Length = 375
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 138 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++M +V
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMDMPVDRV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 258 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 309
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 310 -VLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 368
Query: 491 KMEAML 496
K++ L
Sbjct: 369 KLKDYL 374
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 88/233 (37%), Positives = 140/233 (60%), Gaps = 9/233 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ ++ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 369 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 428
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ +SRA+ + +RT+R+P H+ E + I + L+E G P V+ IAE + M +KV
Sbjct: 429 IRQAISRAIADQARTIRIPIHMIETINRINKIVRKHLQETGKEPDVETIAEEVGMPVEKV 488
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+N + + SL+ +G G+ +I D NP + +K ++ + I+
Sbjct: 489 KNVIKITKEPVSLEAPIGNEEDGKFGD----FIEDKNA-PNPLEVIMKEDMKSKIEE-IL 542
Query: 435 VTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 485
L ERE+ ++R+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH
Sbjct: 543 ENLNEREKAVVRMRFGLMPDESDRTLEEIGKELNVTRERVRQIESSAIKKLKH 595
>gi|239637627|ref|ZP_04678599.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603]
gi|417643250|ref|ZP_12293310.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri VCU121]
gi|445059539|ref|YP_007384943.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri SG1]
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]
gi|443425596|gb|AGC90499.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri SG1]
Length = 367
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 100/314 (31%), Positives = 171/314 (54%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LL+ E + L+K+I+ G
Sbjct: 94 INDPVRMYLKEIGRVDLLSAQEEIELAKRIEQG--------------------------- 126
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 127 ----DEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKF 182
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 183 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 242
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 243 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 293
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 294 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 352
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 353 LRHPSRSKRLKDFM 366
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 146/244 (59%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLAPEKV 255
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 433
R + + SL+ + G G++H +I D + H + L E + +
Sbjct: 256 REILKIAQEPVSLE-----TPIGEEGDSHLGDFIEDQEATSPADHAA--YELLKEQLEDV 308
Query: 434 IVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K++
Sbjct: 309 LDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRL 368
Query: 493 EAML 496
+ L
Sbjct: 369 KDFL 372
>gi|385839023|ref|YP_005876653.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp.
cremoris A76]
gi|358750251|gb|AEU41230.1| RNA polymerase sigma factor RpoD [Lactococcus lactis subsp.
cremoris A76]
Length = 447
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 149/249 (59%), Gaps = 14/249 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDD-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 488 RKKKMEAML 496
R K + +
Sbjct: 439 RSKPLRDFM 447
>gi|418625259|ref|ZP_13187912.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU125]
gi|374825401|gb|EHR89337.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU125]
Length = 368
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRVPVHMVETINKLIRVQRQLLQDLGRDPAHEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|336114403|ref|YP_004569170.1| RpoD subfamily RNA polymerase sigma-70 subunit [Bacillus coagulans
2-6]
gi|335367833|gb|AEH53784.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
coagulans 2-6]
Length = 377
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWW 199
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IAE +++S KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGREPTPEEIAEEMDISPDKV 259
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 260 R-------EIIKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 310
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 311 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 369
Query: 490 KKMEAML 496
K+++ L
Sbjct: 370 KRLKDFL 376
>gi|302391478|ref|YP_003827298.1| RpoD subfamily RNA polymerase sigma-70 subunit [Acetohalobium
arabaticum DSM 5501]
gi|302203555|gb|ADL12233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Acetohalobium
arabaticum DSM 5501]
Length = 358
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 177/313 (56%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT E V L+K+++ G
Sbjct: 85 IDDPVRMYLKEIGKVDLLTAEEEVELAKRMEEGD-------------------------- 118
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
ME A+ LV +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KG+K
Sbjct: 119 --ME---AKRMLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKF 173
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++R++ + +RT+R+P H+ E + +IR ++ L+E G P+ + IAE +
Sbjct: 174 STYATWWIRQAITRSIADQARTIRIPVHMVETINKVIRVSRHLLQELGREPTPEEIAEEM 233
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
++S++KVR +V + +E SL GE S++ D +++ P
Sbjct: 234 DLSEEKVR-------EVLKISQEPV-SLETPIGEEEDSHLGDFIEDDDAPAPSVAASHMM 285
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
L++++++ ++ TL +RE+ ++ L +G+ D T E++ K G++RER+RQ+ AL KL
Sbjct: 286 LQEQLDE-VLDTLSDREKRVLELRFGVEDGRSRTLEEVGKEFGVTRERIRQIEAKALRKL 344
Query: 484 KHAARKKKMEAML 496
+H +R KK++ L
Sbjct: 345 RHPSRSKKLKDYL 357
>gi|406837892|ref|ZP_11097486.1| RNA polymerase sigma factor RpoD [Lactobacillus vini DSM 20605]
Length = 375
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 146/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 197
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPTPEEIGAEMDMPTDKV 257
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D +++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPADHAAYELLKEQLES 309
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 310 -VLETLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 368
Query: 491 KMEAML 496
++ L
Sbjct: 369 QLRDFL 374
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 127 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 186
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +++ +V
Sbjct: 187 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEEMDIPVDRV 246
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 247 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLSE 298
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 299 -VLGTLTEREQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 357
Query: 491 KMEAML 496
K++ L
Sbjct: 358 KLKDYL 363
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 117/359 (32%), Positives = 197/359 (54%), Gaps = 30/359 (8%)
Query: 148 CSGVSARQRRLNSKKKILSQNK-SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELL 206
+G RL+ L NK +LQ N + L + P+L +++ + EE
Sbjct: 5 FAGTVLDADRLDRIYDFLETNKVDVLQINEDEDLE--LDPDL-------FIEEELEEEEE 55
Query: 207 THAEVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ---SILMECSLAREKLVM 262
E + LS + G+S++D ++ LKE L S E++ I + LA+EKL
Sbjct: 56 IDMEHIDLS--VPEGISVEDPVRMYLKEIGKVPLLSSDDEIELAKKIELGDELAKEKLTE 113
Query: 263 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 322
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++R
Sbjct: 114 ANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITR 173
Query: 323 ALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAI 381
A+ + +RT+R+P H+ E + L+R ++ L+E G PS + +A ++M ++VR
Sbjct: 174 AIADQARTIRIPVHMVETINRLVRVSRQLLQELGREPSPEEVASRVDMPVERVR------ 227
Query: 382 GKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLG 438
++ + +E SL GE S++ D ++ P L +++ + ++ TL
Sbjct: 228 -EIMKVSQEPV-SLETPIGEEEDSHLGDFIQDDQVAVPADAATFTMLHEQLME-VLDTLT 284
Query: 439 EREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
ERE++++RL +GLD T E++ + ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 285 EREQKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 343
>gi|256004390|ref|ZP_05429371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
thermocellum DSM 2360]
gi|385778673|ref|YP_005687838.1| RpoD subfamily RNA polymerase sigma-70 subunit [Clostridium
thermocellum DSM 1313]
gi|419722973|ref|ZP_14250109.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum AD2]
gi|419724679|ref|ZP_14251738.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum YS]
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]
gi|380771898|gb|EIC05759.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum YS]
gi|380781030|gb|EIC10692.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum AD2]
Length = 358
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 105/292 (35%), Positives = 169/292 (57%), Gaps = 18/292 (6%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQ-SILMEC--SLAREKLVMSNVRLVM 269
L I G+S+DD ++ LKE L + E++ + ME + A+ +L +N+RLV+
Sbjct: 75 LDLSIPEGISIDDPVRMYLKEIGKVPLLTAEEEIELAHRMEQGDAEAKRRLAEANLRLVV 134
Query: 270 SIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSR 329
SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +R
Sbjct: 135 SIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQAR 194
Query: 330 TLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD 388
T+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR ++ +
Sbjct: 195 TIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR-------EIMKIS 247
Query: 389 REAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREII 445
+E SL GE S++ D +++ P LK+++ ++ TL RE +++
Sbjct: 248 QEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDTLTPREEKVL 305
Query: 446 RLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 306 RLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 357
>gi|269123266|ref|YP_003305843.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptobacillus
moniliformis DSM 12112]
gi|268314592|gb|ACZ00966.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptobacillus
moniliformis DSM 12112]
Length = 379
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 85/226 (37%), Positives = 139/226 (61%), Gaps = 7/226 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+S KGFK STY WW
Sbjct: 141 AKQQLMESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFESDKGFKFSTYATWW 200
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + RT+R+P H+ E + I+ A ++ L+E G P+ D +AE + M +KV
Sbjct: 201 IRQAITRAIADQGRTIRIPVHMIETINKIKKASRIHLQETGKEPTDDYLAEIVEMPVEKV 260
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+N E SL+ + G+ ++ D++ NP LK+++N ++
Sbjct: 261 KNILEMNQDPISLETPVGSEDDSELGD----FVEDDKF-LNPHEATVRSVLKEKLNDVLR 315
Query: 435 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVA 479
L ERE +++RL YGLD T E++ K ++RER+RQ+ + A
Sbjct: 316 KELNEREEQVLRLRYGLDDGAPKTLEEVGKIFDVTRERIRQIEVKA 361
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 85/244 (34%), Positives = 149/244 (61%), Gaps = 10/244 (4%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
ARE+L+ +N+RLV+SIA+RY G DL+Q G IGL++ +EKFD KG+K STY WW
Sbjct: 160 AREELITANLRLVVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWW 219
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 373
IRQ ++RA+ + +RT+R+P H+ E + + N +R L+E G P+V+ + + + +K
Sbjct: 220 IRQAITRAIADQARTIRVPVHMVETINKV-NKVIREHLQEHGEYPTVEELGKLTGKTPEK 278
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLI 433
+ A + SL+ ++G T ++ D +E P L++++++ +
Sbjct: 279 IEEILAASKETVSLES----PISGDEESTMGDFVHDESIE-KPEEAAIKMLLREQIDE-V 332
Query: 434 IVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 492
+ TL RE ++++ YG LD + T E++ + ++RER+RQ+ + AL KL+H +R K++
Sbjct: 333 LDTLSPREAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRHPSRSKQL 392
Query: 493 EAML 496
+A+L
Sbjct: 393 KALL 396
>gi|324999213|ref|ZP_08120325.1| RNA polymerase sigma factor SigB [Pseudonocardia sp. P1]
Length = 380
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 170/304 (55%), Gaps = 12/304 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQSILME 252
Y+ G+ LLT AE V L+K+I+ G+ H+L G+ + R +L++++ +
Sbjct: 81 YLNGIGRTALLTAAEEVDLAKRIEAGI-FAQHRLDTATAEGTLESLDPQYRRDLRAVVRD 139
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
+LA+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY
Sbjct: 140 GALAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYA 199
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWIRQ ++R + + +RT+RLP HL E++ + K + ++ G PS +A+ + +
Sbjct: 200 TWWIRQAITRGMADQARTIRLPVHLVEQVNKLARIKRDMHQRQGREPSEAELAQESGIPE 259
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK 431
K+ + + SLD G+ +I D + + V L D++ +
Sbjct: 260 HKISDLLDHARDPVSLDMPVGSEEEAPLGD----FIEDAEA-TDAENTVISSLLSDDLRR 314
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE+++IR+ +GLD + T + I + LSRERVRQ+ + KL+ R
Sbjct: 315 -VLATLEDREQKVIRMRFGLDDGQPRTLDQIGRAFTLSRERVRQIEREVMAKLRVGERAD 373
Query: 491 KMEA 494
K+ A
Sbjct: 374 KLRA 377
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 175/317 (55%), Gaps = 22/317 (6%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP 244
+P+L + Y++ + LLT A+ V L+++++ GL + KL L + L +
Sbjct: 38 APDLFRQ----YLREIGRIPLLTAADEVDLARRVEAGL-FAEAKLAGPGPLDTRLAL--- 89
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
+L +++ A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++
Sbjct: 90 DLDRLVVLGRAAKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTR 149
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS +
Sbjct: 150 GFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRGLLQERGHEPSHAEV 209
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH---HSYIADNRVENNPWHGV 420
A L +++++V G+V L +E + GE I D + P
Sbjct: 210 AALLGLTKERV-------GEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAA 262
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ + ++ TLGERER++++L YGLD T E+I G++RER+RQ+
Sbjct: 263 LLLLRRHLED--VLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKT 320
Query: 480 LEKLKHAARKKKMEAML 496
L KL+ A ++ L
Sbjct: 321 LAKLRSHAFADQLRGYL 337
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 169/314 (53%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLNAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 128 ----DEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|334344185|ref|YP_004552737.1| RNA polymerase sigma 70 subunit RpoD [Sphingobium chlorophenolicum
L-1]
gi|334100807|gb|AEG48231.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium
chlorophenolicum L-1]
Length = 681
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 151/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 439 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 498
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 499 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 558
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 559 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 610
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 611 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 669
Query: 487 ARKKKMEAML 496
+R KM + L
Sbjct: 670 SRSHKMRSFL 679
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/313 (32%), Positives = 170/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT AE V L+ KI+ G D +
Sbjct: 95 INDPVRMYLKEIGRVQLLTAAEEVELALKIEEG----DQE-------------------- 130
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 131 -------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWA 424
++ +KVR ++ + +E SL GE S++ D ++ +P
Sbjct: 244 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYEL 295
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL
Sbjct: 296 LKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 355 RHPSRSKQLKDFL 367
>gi|15927141|ref|NP_374674.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus N315]
gi|20178083|sp|Q99TT5.1|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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR +V + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EVLKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 94/259 (36%), Positives = 151/259 (58%), Gaps = 24/259 (9%)
Query: 241 ISRPELQSILMEC-------SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 293
+S +LQ+IL + +A+ ++ SN+RLV+SIA+RY N G DL+Q G IGL
Sbjct: 351 LSEEKLQAILEQIRQGKAKSEVAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGL 410
Query: 294 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--L 351
++ ++KF+ KG+K STY WWIRQ +SRA+ + +RT+R+P H+ E + I N +R L
Sbjct: 411 MKAVDKFEYEKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRI-NKIIRKHL 469
Query: 352 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 411
+E G P ++ IA+ + ++ KV+N + + SL+ +G G+
Sbjct: 470 QETGKEPDLETIAKEVGLTVDKVKNVIKITKEPVSLETPVGDEDDGRFGDF--------- 520
Query: 412 VENNPWHGVDDWALKDEVNKLI---IVTLGEREREIIRLYYGL--DKECLTWEDISKRIG 466
+E+ D LKD++N I + L ERE+ +IR+ +GL D+ T E+I K +
Sbjct: 521 IEDKTTLSPTDAVLKDDLNNQIDEVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELN 580
Query: 467 LSRERVRQVGLVALEKLKH 485
++RERVRQ+ A++KLKH
Sbjct: 581 VTRERVRQIESSAIKKLKH 599
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/241 (37%), Positives = 141/241 (58%), Gaps = 8/241 (3%)
Query: 259 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 318
+L N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +GFK STY WWIRQ
Sbjct: 328 ELSSGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGFKFSTYATWWIRQ 387
Query: 319 GVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNA 377
++RA+ + +RT+R+P H+ + L +RN + R L+E P++D IA + ++VR
Sbjct: 388 AITRAIADQARTIRIPVHMIDVLSKLRNVQKRLLQELRREPTMDEIARRAEIDLEEVRRV 447
Query: 378 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 437
+ + SLDR S + GE +I D+ E P + L+D + L + TL
Sbjct: 448 MDIGRQPVSLDRPIGESEDSSFGE----FIEDSH-EETPIRSASNQILRDRIQGL-LKTL 501
Query: 438 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
REREII+L YGL D T E++ + ++RERVRQ+ A+ KL+H R +++E L
Sbjct: 502 TYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSQQLEGFL 561
Query: 497 V 497
Sbjct: 562 A 562
>gi|384518554|ref|YP_005705859.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis
62]
gi|397699845|ref|YP_006537633.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis
D32]
gi|323480687|gb|ADX80126.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis
62]
gi|397336484|gb|AFO44156.1| RNA polymerase sigma factor rpoD (Sigma-42) [Enterococcus faecalis
D32]
Length = 356
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/313 (32%), Positives = 170/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT AE V L+ KI+ G D +
Sbjct: 83 INDPVRMYLKEIGRVQLLTAAEEVELALKIEEG----DQE-------------------- 118
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 119 -------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKF 171
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 172 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 231
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWA 424
++ +KVR ++ + +E SL GE S++ D ++ +P
Sbjct: 232 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYEL 283
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL
Sbjct: 284 LKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 342
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 343 RHPSRSKQLKDFL 355
>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 ARO1/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|384513206|ref|YP_005708299.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis OG1RF]
gi|421512418|ref|ZP_15959225.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29212]
gi|422689405|ref|ZP_16747517.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0630]
gi|422693062|ref|ZP_16751077.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0031]
gi|422694944|ref|ZP_16752932.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4244]
gi|422699260|ref|ZP_16757133.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1346]
gi|422701717|ref|ZP_16759557.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1342]
gi|422704436|ref|ZP_16762246.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1302]
gi|422706710|ref|ZP_16764408.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0043]
gi|422708433|ref|ZP_16765961.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0027]
gi|422714660|ref|ZP_16771386.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309A]
gi|422715918|ref|ZP_16772634.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309B]
gi|422718883|ref|ZP_16775534.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0017]
gi|422722558|ref|ZP_16779108.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2137]
gi|422727009|ref|ZP_16783452.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0312]
gi|422728944|ref|ZP_16785350.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0012]
gi|422733618|ref|ZP_16789920.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0645]
gi|422734351|ref|ZP_16790645.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1341]
gi|422739714|ref|ZP_16794887.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2141]
gi|422869407|ref|ZP_16915927.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1467]
gi|424673258|ref|ZP_18110201.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis 599]
gi|424676801|ref|ZP_18113672.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV103]
gi|424681381|ref|ZP_18118168.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV116]
gi|424683570|ref|ZP_18120320.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV129]
gi|424686525|ref|ZP_18123193.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV25]
gi|424690202|ref|ZP_18126737.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV31]
gi|424695296|ref|ZP_18131679.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV37]
gi|424696965|ref|ZP_18133306.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV41]
gi|424699649|ref|ZP_18135860.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV62]
gi|424703338|ref|ZP_18139472.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV63]
gi|424706029|ref|ZP_18142042.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV65]
gi|424717174|ref|ZP_18146472.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV68]
gi|424720753|ref|ZP_18149854.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV72]
gi|424724303|ref|ZP_18153252.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV73]
gi|424733890|ref|ZP_18162445.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV81]
gi|424743807|ref|ZP_18172112.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV85]
gi|424749506|ref|ZP_18177609.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV93]
gi|424761355|ref|ZP_18188937.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis R508]
gi|428766960|ref|YP_007153071.1| RNA polymerase sigma factor [Enterococcus faecalis str. Symbioflor
1]
gi|430360376|ref|ZP_19426223.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis OG1X]
gi|430368205|ref|ZP_19428077.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis M7]
gi|30179886|sp|P52329.2|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]
gi|401674531|gb|EJS80882.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29212]
gi|402351088|gb|EJU85980.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV116]
gi|402353068|gb|EJU87904.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis 599]
gi|402356421|gb|EJU91155.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV103]
gi|402364568|gb|EJU99003.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV129]
gi|402364889|gb|EJU99320.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV31]
gi|402367379|gb|EJV01720.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV25]
gi|402368473|gb|EJV02786.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV37]
gi|402375578|gb|EJV09558.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV62]
gi|402377294|gb|EJV11205.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV41]
gi|402385343|gb|EJV18883.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV63]
gi|402386522|gb|EJV20028.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV68]
gi|402388672|gb|EJV22100.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV65]
gi|402390900|gb|EJV24220.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV81]
gi|402393224|gb|EJV26454.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV72]
gi|402395444|gb|EJV28550.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV73]
gi|402399936|gb|EJV32790.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV85]
gi|402402339|gb|EJV35060.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis R508]
gi|402407757|gb|EJV40262.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV93]
gi|427185133|emb|CCO72357.1| RNA polymerase sigma factor [Enterococcus faecalis str. Symbioflor
1]
gi|429512852|gb|ELA02447.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis OG1X]
gi|429516367|gb|ELA05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis M7]
Length = 368
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/313 (32%), Positives = 170/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT AE V L+ KI+ G D +
Sbjct: 95 INDPVRMYLKEIGRVQLLTAAEEVELALKIEEG----DQE-------------------- 130
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 131 -------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWA 424
++ +KVR ++ + +E SL GE S++ D ++ +P
Sbjct: 244 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYEL 295
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL
Sbjct: 296 LKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 355 RHPSRSKQLKDFL 367
>gi|373488933|ref|ZP_09579596.1| RNA polymerase, sigma 70 subunit, RpoD [Holophaga foetida DSM 6591]
gi|372004409|gb|EHP05048.1| RNA polymerase, sigma 70 subunit, RpoD [Holophaga foetida DSM 6591]
Length = 572
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 92/248 (37%), Positives = 149/248 (60%), Gaps = 17/248 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L+ +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ S+GFK STY WW
Sbjct: 334 AKAELIEANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMKAVDKFEYSRGFKFSTYATWW 393
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G PS + IA+ ++M KV
Sbjct: 394 IRQAITRAIADQARTIRIPVHMIETINKLIRTQRELVQKLGREPSSEEIAQAMDMPVSKV 453
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V LK+ VN
Sbjct: 454 R-------KVMKIAQEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPVEQVVSARLKETVN 504
Query: 431 KLIIVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL ERE +++R+ +G+ D T E++ ++RER+RQ+ AL K++H
Sbjct: 505 S-VLHTLTEREEKVLRMRFGVGDDTSEHTLEEVGSEFAVTRERIRQIESKALRKIRHPRY 563
Query: 489 KKKMEAML 496
K ++A L
Sbjct: 564 SKTLKAFL 571
>gi|421102433|ref|ZP_15563037.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Icterohaemorrhagiae str. Verdun LP]
gi|410367547|gb|EKP22931.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Icterohaemorrhagiae str. Verdun LP]
Length = 585
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 148/247 (59%), Gaps = 16/247 (6%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++RA+ + +RT+R+P H+ E++ +IR +L ++E G P+ + IAE L
Sbjct: 403 ATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWP 462
Query: 371 QKKVRN----ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALK 426
+KV+ A E I + E L G +I D VE P + L
Sbjct: 463 VQKVKMVKNVAREPISLEIPVGSEEDSELGG--------FIPDTEVE-TPVNAAASSILA 513
Query: 427 DEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKH 485
+++ + ++ TL RER++IR+ +GLD T E++ + ++RER+RQ+ AL +L+H
Sbjct: 514 EQIRQ-VLHTLPARERKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRH 572
Query: 486 AARKKKM 492
+R KK+
Sbjct: 573 PSRSKKL 579
>gi|403730463|ref|ZP_10949020.1| RNA polymerase sigma factor SigB [Gordonia rhizosphera NBRC 16068]
gi|403202499|dbj|GAB93351.1| RNA polymerase sigma factor SigB [Gordonia rhizosphera NBRC 16068]
Length = 339
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 167/304 (54%), Gaps = 18/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L ++RL ++ + +L I+ E
Sbjct: 46 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLETRKRLSAT---RKRDLAIIVREGEY 101
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 102 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 161
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +A + +K+
Sbjct: 162 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELANESGIPAEKI 221
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
+ + SLD G+ +I D EN G+ L +V +
Sbjct: 222 ADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDAEGTSAENAVIAGL----LHSDV-R 272
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ+ + KL+ R +
Sbjct: 273 AVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMNKLRQGERAE 332
Query: 491 KMEA 494
++ A
Sbjct: 333 RLRA 336
>gi|422686027|ref|ZP_16744240.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4000]
gi|315029422|gb|EFT41354.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4000]
Length = 368
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/313 (32%), Positives = 170/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT AE V L+ KI+ G D +
Sbjct: 95 INDPVRMYLKEIGRVQLLTAAEEVELALKIEEG----DQE-------------------- 130
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 131 -------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWA 424
++ +KVR ++ + +E SL GE S++ D ++ +P
Sbjct: 244 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYEL 295
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL
Sbjct: 296 LKEQLED-VLDTLTDREENVLRLRFGLDNGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 355 RHPSRSKQLKDFL 367
>gi|167747159|ref|ZP_02419286.1| hypothetical protein ANACAC_01873 [Anaerostipes caccae DSM 14662]
gi|167654119|gb|EDR98248.1| RNA polymerase sigma factor RpoD [Anaerostipes caccae DSM 14662]
Length = 370
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 133 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +++ +V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEEMDIPVDRV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLSE 304
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLGTLTEREQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KMEAML 496
K++ L
Sbjct: 364 KLKDYL 369
>gi|23295779|gb|AAN12882.1| principal sigma factor RpoD [Bifidobacterium animalis subsp.
lactis]
Length = 508
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 109/336 (32%), Positives = 183/336 (54%), Gaps = 21/336 (6%)
Query: 168 NKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
++++L G R +++ + +K Y+K + LL + V LS++I+ GL +
Sbjct: 185 DEALLANPGVNPKRRVVTTGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAGL----Y 240
Query: 228 KLRLKERLGSSLRISRP-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
L + G ++ R EL+ + A++ L+ +N+RLV+S+A+RY G DL+
Sbjct: 241 AQHLLDTEGDTMEFRRKRELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLI 300
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G +GL+R +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R
Sbjct: 301 QEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSR 360
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
+ L++ G P+ D +A L+M +KV+ +V RE SL+ GE S
Sbjct: 361 VQRQMLQDLGREPTPDELARELDMPVEKVQ-------EVQKYGREPI-SLHTPLGEDGDS 412
Query: 406 YIADNRVENN----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWED 460
D +E+ P V ++L E + ++ TL RE +I++ YGL D + T +D
Sbjct: 413 EFGD-LIEDTDAIAPSEAV-AFSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDD 470
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
I + G++RER+RQ+ + KL+H +R + + L
Sbjct: 471 IGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFL 506
>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 = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMNTDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++ +P LK+++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPEEHASYELLKEQLES 303
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KMEAML 496
+++ L
Sbjct: 363 QLKDFL 368
>gi|418576063|ref|ZP_13140209.1| RNA polymerase sigma factor RpoD [Staphylococcus saprophyticus
subsp. saprophyticus KACC 16562]
gi|379325125|gb|EHY92257.1| RNA polymerase sigma factor RpoD [Staphylococcus saprophyticus
subsp. saprophyticus KACC 16562]
Length = 368
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 169/314 (53%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LL E + L+KKI+ G
Sbjct: 95 INDPVRMYLKEIGRVNLLNAQEEIELAKKIEQG--------------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 128 ----DEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
++ +KVR ++ + +E SL GE S++ D +E+ D A
Sbjct: 244 DLPPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYE 294
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 295 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 353
Query: 483 LKHAARKKKMEAML 496
L+H +R K+++ +
Sbjct: 354 LRHPSRSKRLKDFM 367
>gi|347531276|ref|YP_004838039.1| RpoD family RNA polymerase sigma factor [Roseburia hominis A2-183]
gi|345501424|gb|AEN96107.1| RpoD family RNA polymerase sigma factor [Roseburia hominis A2-183]
Length = 402
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/297 (34%), Positives = 173/297 (58%), Gaps = 20/297 (6%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSL----AREKLVMSN 264
EV ++ + G+S++D ++ LKE +G +S E + L A+++L +N
Sbjct: 115 EVEKIDLSVPDGVSIEDPVRMYLKE-IGKVPLLSAEEEIELAKRMELGDQEAKKRLAEAN 173
Query: 265 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 324
+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++RA+
Sbjct: 174 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAI 233
Query: 325 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 383
+ +RT+R+P H+ E + LIR ++ L+E G P+ + IA +NM ++VR +
Sbjct: 234 ADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMNMPVERVR-------E 286
Query: 384 VFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGER 440
+ + +E SL GE S++ D ++N P LK+++ + ++ TL ER
Sbjct: 287 ILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLEE-VLGTLTER 344
Query: 441 EREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
E++++ L +GL D T E++ K ++RER+RQ+ AL KL+H +R +K++ L
Sbjct: 345 EQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYL 401
>gi|428227195|ref|YP_007111292.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geitlerinema sp.
PCC 7407]
gi|427987096|gb|AFY68240.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geitlerinema sp.
PCC 7407]
Length = 365
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 171/316 (54%), Gaps = 22/316 (6%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKER---------LGSSLRISRPE 245
+ K + LL E V L++ I+ +++ + + +E L +L ++ +
Sbjct: 57 AFFKEMARYPLLKPDEEVELARHIQQLNEIEELRAQFEEEHGRRPNKAELADALGLTERQ 116
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 117 LEQRLHRSQVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 176
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVD-RIA 364
+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ A+ L P + +A
Sbjct: 177 YKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRRDLKRPPTEAELA 236
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVD 421
L +++ E + ++ + R++ SLN G + + D +NN P +
Sbjct: 237 TVLEITE-------EQLQQLLQVRRQSL-SLNVRVGREEDTELVDLLEDNNSRSPEAQMS 288
Query: 422 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 480
+ ++ E+ +++ L ERE+EI+ L YG++ E T E++ LSRERVRQ+ A+
Sbjct: 289 ERMMRQEIAEVLSEVLTEREKEIVCLRYGIETGETHTLEEVGNIFNLSRERVRQIQTRAM 348
Query: 481 EKLKHAARKKKMEAML 496
KL+ ++++ L
Sbjct: 349 RKLRRPQVARRLQGWL 364
>gi|409993030|ref|ZP_11276188.1| RNA polymerase sigma factor SigC [Arthrospira platensis str.
Paraca]
gi|409936091|gb|EKN77597.1| RNA polymerase sigma factor SigC [Arthrospira platensis str.
Paraca]
Length = 409
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/258 (34%), Positives = 154/258 (59%), Gaps = 9/258 (3%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL+ + E A++ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 155 LSVEELKQVQREGIQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 214
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D ++G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EK T +
Sbjct: 215 DPTRGYRFSTYSYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKSRTAT 274
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+D IA L M+ ++R + + SL+ + G +T + + E+ P
Sbjct: 275 IDDIATELKMTPDQIREVLLRVPRSVSLETKV-----GTDKDTELGDLLETE-ESTPEEL 328
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ +L E+ I+ L +ER +I++ YGL D + +I + + LSRERVRQ+
Sbjct: 329 LMRESLYRELQH-ILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAK 387
Query: 479 ALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 388 ALQKLRQPKRRNRVRDYL 405
>gi|335357397|ref|ZP_08549267.1| RNA polymerase sigma factor RpoD [Lactobacillus animalis KCTC 3501]
Length = 323
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 146/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 86 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 145
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I +NM +KV
Sbjct: 146 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPIPEEIGAEMNMPTEKV 205
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++ +P LK+++
Sbjct: 206 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQIES 257
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 258 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 316
Query: 491 KMEAML 496
+++ L
Sbjct: 317 QLKDFL 322
>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 = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 176/310 (56%), Gaps = 31/310 (10%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDD--HKLRLK-------ERLGSSLRISR 243
++ Y+K + LLTH + + L ++++ + + + KL LK E L +SL +S
Sbjct: 15 VRSYLKEISRIPLLTHEQEITLGRQVQELICIQETEQKLELKNGIKPTQEELANSLDLSI 74
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
+++ ++ A+E++V SN+RLV+SIA++Y ++ DLVQ G IGL+RG+EKFD +
Sbjct: 75 NQVKRKIIHGKRAKEQMVSSNLRLVVSIAKKYTKRSMELLDLVQEGTIGLIRGVEKFDPT 134
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ A+ L + G TP+V
Sbjct: 135 RGYKFSTYAYWWIRQGITRAISEQSRTIRLPIHITEELNKLKKAQRDLSQSLGRTPTVIE 194
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSL-----DREAFPSLNGLPGETHHSYIADNRVENNPW 417
+A+ + +++K+V+ + SL D + L LP E P
Sbjct: 195 LAKMIKLTEKEVKELLCHAKQPVSLEMKIGDGDDTVLLELLPSEIEL-----------PE 243
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQV- 475
V+ L+ ++ L+ L E + I+++ YG D E LT I + +G+SR+RVR +
Sbjct: 244 EYVNRKCLRRDLLALV-EQLPEIQVRILKMRYGFDSTEPLTLTGIGRVLGMSRDRVRNLE 302
Query: 476 --GLVALEKL 483
G+ L+KL
Sbjct: 303 RDGINRLQKL 312
>gi|427390144|ref|ZP_18884550.1| RNA polymerase sigma factor RpoD [Actinobaculum massiliae
ACS-171-V-Col2]
gi|425733159|gb|EKU95965.1| RNA polymerase sigma factor RpoD [Actinobaculum massiliae
ACS-171-V-Col2]
Length = 585
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 108/304 (35%), Positives = 170/304 (55%), Gaps = 21/304 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLS----LDDHKLRLKERLGSSLRISRPELQS 248
+K Y+K + LL AE V LSK+I+ GL LD+ +E R R EL+
Sbjct: 286 VKDYLKQIGRVALLNAAEEVELSKRIEAGLYAQHLLDEGDFDPQE----DRRYMR-ELRI 340
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K
Sbjct: 341 IARDGRSAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDYTKGYKF 400
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + SRT+R+P H+ E + L R + L++ G P+ + +A L
Sbjct: 401 STYATWWIRQAITRAMADQSRTIRIPVHMVEVINKLARVQRQMLQDLGREPTTEELAHEL 460
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWAL 425
+M+++KV +V RE SL+ GE S D ++ H D + L
Sbjct: 461 DMTEEKVV-------EVQRYGREPI-SLHTPLGEDGDSEFGDLIEDSEAVHPDDAVGFTL 512
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
E + ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL+
Sbjct: 513 LKEQLQQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 572
Query: 485 HAAR 488
H +R
Sbjct: 573 HPSR 576
>gi|354807988|ref|ZP_09041435.1| RNA polymerase sigma factor rpoD [Lactobacillus curvatus CRL 705]
gi|354513521|gb|EHE85521.1| RNA polymerase sigma factor rpoD [Lactobacillus curvatus CRL 705]
Length = 369
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWW 191
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMNTDKV 251
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++ +P LK+++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPEEHASYELLKEQLES 303
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 362
Query: 491 KMEAML 496
+++ L
Sbjct: 363 QLKDFL 368
>gi|225450015|ref|XP_002272444.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 426
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 98/249 (39%), Positives = 141/249 (56%), Gaps = 8/249 (3%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
I R L +L +RE++ S RLV+SIA RY G + DL+Q G IGLLRG E+F
Sbjct: 174 IKRSSLDKMLCNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERF 233
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 359
D +G+K+STYVYWWIRQ + RA+ SR +RLP + E + I A+ L + P+
Sbjct: 234 DPDRGYKLSTYVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPT 293
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
D IAE+++++ VR +E S+D +A S G I E P
Sbjct: 294 YDEIAEFIDVNVSTVRLVSERSRTPISVD-QAVTS----QGCMTLQEIIPGPDETTPQKM 348
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLV 478
V +K EV + + TL ERE I+RLY+G++ E L++E+I + + LSRERVRQ+ +
Sbjct: 349 VKRQLMKQEVER-ALNTLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSI 407
Query: 479 ALEKLKHAA 487
AL KL+ +
Sbjct: 408 ALSKLRQTS 416
>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 = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 179/314 (57%), Gaps = 16/314 (5%)
Query: 187 ELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPEL 246
E +++ ++ Y++ + LLT E V L+++ G + + RL+ ++ R R L
Sbjct: 58 EPVEDSVQLYLQEIGQVPLLTAEEEVELARQYSRG---KEARQRLRNEDFANDR-ERMRL 113
Query: 247 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA--DLVQGGLIGLLRGIEKFDSSK 304
+ + AR +L+ +N+RLV+S+A++Y +G+ MA DLVQ G IGL+R +EKFD +K
Sbjct: 114 EMEMARGEEARRRLIQANLRLVVSVAKKY--IGSPMAFMDLVQEGNIGLMRAVEKFDYTK 171
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRI 363
G + STY WWIRQ V+RA+ E SR +RLP HL E + +R A RLE++ P+ + +
Sbjct: 172 GNRFSTYATWWIRQAVTRAIAEQSRLIRLPVHLSESIVHLRRAIYRLEQELEREPTAEEL 231
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A LNMS +KV+ A + SL++ G ET +AD V +P +
Sbjct: 232 AHALNMSVRKVKRLIRASTQPISLEQPLNNEQEGRVSET----LADETV-ASPMEIAEQK 286
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L E+ + L ERER+I++L YGL D + T E++ G++RER RQ+ AL +
Sbjct: 287 MLHAELTA-ALNELPERERKILQLRYGLIDGQRRTLEEVGATFGITRERTRQIEAEALRR 345
Query: 483 LKHAARKKKMEAML 496
L+H + +++ + L
Sbjct: 346 LRHPSVGQRLHSYL 359
>gi|449454538|ref|XP_004145011.1| PREDICTED: RNA polymerase sigma factor sigB-like [Cucumis sativus]
gi|449473951|ref|XP_004154029.1| PREDICTED: RNA polymerase sigma factor sigB-like [Cucumis sativus]
Length = 580
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 111/355 (31%), Positives = 190/355 (53%), Gaps = 17/355 (4%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVR 213
+ RR + +K ++ S + S++ R+ + + L+ + LLT E +
Sbjct: 231 KARRTRAAEKTVTSVLSFKSGSSSRKKRNSVQEVDYSDPLRYLRATTNTSRLLTATEELE 290
Query: 214 LSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPELQSILMECSLAREKLVMSN 264
LS+ I+ L L+ + L ER G ++ +++ L+ L +L ++K++ SN
Sbjct: 291 LSEGIQDLLKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDKMIKSN 350
Query: 265 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 324
+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKGFK STY +WWI+Q V + L
Sbjct: 351 IRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFL 410
Query: 325 VENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 383
+ SRT+RLP H+ E ++ A+ + L E G P IAE +S K++
Sbjct: 411 SDQSRTIRLPFHMVEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAVLMTPKA 470
Query: 384 VFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 443
SL+++ + N P E I+D E + + +K ++ K ++ +L RE++
Sbjct: 471 PRSLEQKIGINQNLKPSEV----ISDPEAETCEDMLIKQF-MKQDLEK-VLDSLNPREKQ 524
Query: 444 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 497
+IR +G+ D T ++I + +G+SRER+RQ+ A KLK+ R K ++ ++
Sbjct: 525 VIRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFRKLKNKKRTKHLQQYVM 579
>gi|347525279|ref|YP_004832027.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 27782]
gi|345284238|gb|AEN78091.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 27782]
Length = 373
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 148/247 (59%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I +N+ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPIPEEIGAEMNLPTEKV 255
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDHAATSPADHAAYELLKEQIE 306
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 307 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 365
Query: 490 KKMEAML 496
K+++ L
Sbjct: 366 KQLKDFL 372
>gi|366053198|ref|ZP_09450920.1| RNA polymerase sigma factor RpoD [Lactobacillus suebicus KCTC 3549]
Length = 381
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 144 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 203
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 204 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 263
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + + D A LK+++
Sbjct: 264 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEN 315
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 316 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 374
Query: 491 KMEAML 496
+++ L
Sbjct: 375 QLKDFL 380
>gi|209525810|ref|ZP_03274346.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|423064796|ref|ZP_17053586.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|209493783|gb|EDZ94102.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|406714039|gb|EKD09207.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 407
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/258 (34%), Positives = 154/258 (59%), Gaps = 9/258 (3%)
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+S EL+ + E A++ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKF
Sbjct: 153 LSVEELKQVQREGLQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKF 212
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D ++G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EK T +
Sbjct: 213 DPTRGYRFSTYSYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKSRTAT 272
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 419
+D IA L M+ ++R + + SL+ + G +T + + E+ P
Sbjct: 273 IDDIATELKMTPDQIREVLLRVPRSVSLETKV-----GTDKDTELGDLLETE-ESTPEEL 326
Query: 420 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 478
+ +L E+ L + L +ER +I++ YGL D + +I + + LSRERVRQ+
Sbjct: 327 LMRESLYRELQNL-LADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAK 385
Query: 479 ALEKLKHAARKKKMEAML 496
AL+KL+ R+ ++ L
Sbjct: 386 ALQKLRQPKRRNRVRDYL 403
>gi|452992460|emb|CCQ96087.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 384
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 167/314 (53%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + LLT E + L+K+I+ G
Sbjct: 111 INDPVRMYLKEIGRVPLLTADEEIELAKRIEQG--------------------------- 143
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+ +L +N+RLV+SIA+RY G DL+Q G +GLL+ ++KFD +KG+K
Sbjct: 144 ----DEAAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLLKAVDKFDYNKGYKF 199
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ +
Sbjct: 200 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTAEEIAKEM 259
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA--- 424
MS KVR + + SL+ GE S++ D +E+ D A
Sbjct: 260 EMSPDKVREIQKIAQEPVSLETPI--------GEEDDSHLGDF-IEDQEALAPSDAAAYE 310
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL K
Sbjct: 311 LLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 369
Query: 483 LKHAARKKKMEAML 496
L+H +R K++ L
Sbjct: 370 LRHPSRSKRLRDFL 383
>gi|384191381|ref|YP_005577129.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12]
gi|384192526|ref|YP_005578273.1| HrdB [Bifidobacterium animalis subsp. lactis CNCM I-2494]
gi|289178873|gb|ADC86119.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12]
gi|340365263|gb|AEK30554.1| HrdB [Bifidobacterium animalis subsp. lactis CNCM I-2494]
Length = 522
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 109/336 (32%), Positives = 183/336 (54%), Gaps = 21/336 (6%)
Query: 168 NKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
++++L G R +++ + +K Y+K + LL + V LS++I+ GL +
Sbjct: 199 DEALLANPGVNPKRRVVTTGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAGL----Y 254
Query: 228 KLRLKERLGSSLRISRP-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
L + G ++ R EL+ + A++ L+ +N+RLV+S+A+RY G DL+
Sbjct: 255 AQHLLDTEGDTMEFRRKRELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLI 314
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G +GL+R +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R
Sbjct: 315 QEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSR 374
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
+ L++ G P+ D +A L+M +KV+ +V RE SL+ GE S
Sbjct: 375 VQRQMLQDLGREPTPDELARELDMPVEKVQ-------EVQKYGREPI-SLHTPLGEDGDS 426
Query: 406 YIADNRVENN----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWED 460
D +E+ P V ++L E + ++ TL RE +I++ YGL D + T +D
Sbjct: 427 EFGD-LIEDTDAIAPSEAV-AFSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDD 484
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
I + G++RER+RQ+ + KL+H +R + + L
Sbjct: 485 IGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFL 520
>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|336438788|ref|ZP_08618411.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
1_1_57FAA]
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]
gi|336017785|gb|EGN47541.1| RNA polymerase sigma factor rpoD [Lachnospiraceae bacterium
1_1_57FAA]
Length = 370
Score = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 133 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ L+M ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KM 492
K+
Sbjct: 364 KL 365
>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 = 155 bits (393), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 102/325 (31%), Positives = 181/325 (55%), Gaps = 32/325 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR----------IS 242
++ Y++ + LLTH + + L ++++ ++L++ + L R G + +S
Sbjct: 22 VRSYLRDIGRVPLLTHEQEITLGRQVQELMALEEMEQELTMRAGGTAPSAAELAKAAGLS 81
Query: 243 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 302
L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 82 PAVLKKRLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 141
Query: 303 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 361
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 142 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVT 201
Query: 362 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--PWH 418
+A Y+ + +++V++ L R P SL G+ + + D + P
Sbjct: 202 ELAGYVELPEEEVKDL---------LCRARQPVSLETKVGDGEDTELLDLLAGDGELPEE 252
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC------LTWEDISKRIGLSRERV 472
VD LK ++ L + L E + ++++ YGLD E ++ I+K +G+SR++
Sbjct: 253 RVDGECLKGDLRAL-LEQLPELQGRVLKMRYGLDPEGQGLTEPMSLSSIAKNLGMSRDKT 311
Query: 473 RQVGLVALEKLKHAARKKKMEAMLV 497
R + ALE ++ +R ++E LV
Sbjct: 312 RNLERKALEGIRSQSR--RLEGYLV 334
>gi|398828936|ref|ZP_10587136.1| RNA polymerase sigma factor, sigma-70 family [Phyllobacterium sp.
YR531]
gi|398217794|gb|EJN04311.1| RNA polymerase sigma factor, sigma-70 family [Phyllobacterium sp.
YR531]
Length = 675
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 85/250 (34%), Positives = 149/250 (59%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +LA++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EAALAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 552
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKD 427
+KVR KV + +E SL G+ S++ D + N P L+D
Sbjct: 553 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRD 604
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
+ ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TTTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 487 ARKKKMEAML 496
+R +K+ + L
Sbjct: 664 SRSRKLRSFL 673
>gi|421074930|ref|ZP_15535949.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
gi|392526990|gb|EIW50097.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
Length = 377
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/295 (34%), Positives = 168/295 (56%), Gaps = 32/295 (10%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLA----------REKLVMSNVR 266
I G+S+DD ++ LKE I R L + E LA + +L +N+R
Sbjct: 98 IPEGISIDDPVRMYLKE-------IGRVPLLTADEEIKLAQRMEEGDEEAKRRLAEANLR 150
Query: 267 LVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVE 326
LV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ ++RA+ +
Sbjct: 151 LVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIAD 210
Query: 327 NSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVF 385
+RT+R+P H+ E + LIR ++ L+E G P + IA+ +++S ++VR ++
Sbjct: 211 QARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVR-------EIM 263
Query: 386 SLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
+ +E SL GE S++ D ++ P LK+++ + ++ TL RE
Sbjct: 264 KIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VLETLTPREE 321
Query: 443 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 322 KVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 376
>gi|216733|dbj|BAA01038.1| RNA polymerase sigma factor [Lactococcus lactis]
Length = 340
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 101 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 160
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 161 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 220
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 221 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 272
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 273 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 331
Query: 488 RKKKMEAML 496
R K + +
Sbjct: 332 RSKPLRDFM 340
>gi|318080032|ref|ZP_07987364.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF]
Length = 340
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 175/317 (55%), Gaps = 22/317 (6%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP 244
+P+L + Y++ + LLT A+ V L+++++ GL + KL L + L +
Sbjct: 40 APDLFRQ----YLREIGRIPLLTAADEVDLARRVEAGL-FAEAKLAGPGPLDTRLAL--- 91
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
+L +++ A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD ++
Sbjct: 92 DLDRLVVLGRAAKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTR 151
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRI 363
GFK STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS +
Sbjct: 152 GFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRGLLQERGHEPSHAEV 211
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH---HSYIADNRVENNPWHGV 420
A L +++++V G+V L +E + GE I D + P
Sbjct: 212 AALLGLTKERV-------GEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAA 264
Query: 421 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 479
+ + ++ TLGERER++++L YGLD T E+I G++RER+RQ+
Sbjct: 265 LLLLRRHLED--VLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKT 322
Query: 480 LEKLKHAARKKKMEAML 496
L KL+ A ++ L
Sbjct: 323 LAKLRSHAFADQLRGYL 339
>gi|310659059|ref|YP_003936780.1| RNA polymerase sigma factor RpoD [[Clostridium] sticklandii]
gi|308825837|emb|CBH21875.1| RNA polymerase sigma factor RpoD [[Clostridium] sticklandii]
Length = 376
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/293 (34%), Positives = 170/293 (58%), Gaps = 18/293 (6%)
Query: 213 RLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECS----LAREKLVMSNVRL 267
+L I G+S+DD ++ LKE +G +S E + + +A++KLV +N+RL
Sbjct: 92 KLDLSIPKGVSIDDPVRMYLKE-IGKIPLLSAEEEIDLAEKMGYGDEIAKKKLVEANLRL 150
Query: 268 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 327
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 151 VVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQ 210
Query: 328 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 386
+RT+R+P H+ E + LIR + L+E G P + +A+ ++M ++K+R ++
Sbjct: 211 ARTIRIPVHMVETINKLIRVHRQLLQEYGRDPKPEELAKEMDMPEEKIR-------EIMK 263
Query: 387 LDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREI 444
+ +E SL GE S++ D + ++L E + ++ TL ERE+++
Sbjct: 264 IAQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQLEDVLCTLNEREQKV 322
Query: 445 IRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++L +GL D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 323 LKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 375
>gi|334339752|ref|YP_004544732.1| RNA polymerase sigma factor RpoD [Desulfotomaculum ruminis DSM
2154]
gi|334091106|gb|AEG59446.1| RNA polymerase sigma factor RpoD [Desulfotomaculum ruminis DSM
2154]
Length = 366
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 104/296 (35%), Positives = 173/296 (58%), Gaps = 22/296 (7%)
Query: 212 VRLSKKIKTGLSLDDH-KLRLKERLGSSLRISRPELQSILME-----CSLAREKLVMSNV 265
V + I G+ +DD ++ LKE +G +S PE + L E A+ +L +N+
Sbjct: 81 VEVDLSIPEGIGIDDPVRMYLKE-IGRVPLLS-PEEEVELAERMEAGDEEAKRRLAEANL 138
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 139 RLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 198
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR ++ L+E G PS + IA+ + +S +KVR ++
Sbjct: 199 DQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMEISGEKVR-------EI 251
Query: 385 FSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D + P L++++++ ++ TL +RE
Sbjct: 252 MKIAQEPV-SLETPIGEEEDSHLGDFIEDADARAPAEEASFTLLREQLDE-VLKTLTDRE 309
Query: 442 REIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++++RL +GLD T E++ ++ G++RER+RQ+ L KL+H +R KK++ L
Sbjct: 310 QKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 365
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 150/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A+ ++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 429 EARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 488
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E G P+ + +AE L+M
Sbjct: 489 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPTPEELAERLSMP 548
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 549 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 600
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 601 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 659
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 660 SRSRKMRSFL 669
>gi|442322639|ref|YP_007362660.1| RNA polymerase sigma factor RpoD [Myxococcus stipitatus DSM 14675]
gi|441490281|gb|AGC46976.1| RNA polymerase sigma factor RpoD [Myxococcus stipitatus DSM 14675]
Length = 709
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 471 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 530
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 531 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 590
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 591 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 641
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 642 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 700
Query: 490 KKMEAML 496
K++ + +
Sbjct: 701 KRLRSFV 707
>gi|428214219|ref|YP_007087363.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
gi|428002600|gb|AFY83443.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
Length = 387
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 175/318 (55%), Gaps = 34/318 (10%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL-------------G 236
++ ++ Y++ + LL E + L++KI L L+ R++E L
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREHLCDHLHREPYDAEWA 131
Query: 237 SSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 296
++++S + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 132 DAVKMSVGQFRHRLHCGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 191
Query: 297 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 355
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 192 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 251
Query: 356 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 414
P+ + IA + M+ +K+R F P SL G+ S + D +E+
Sbjct: 252 RKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 301
Query: 415 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 470
+ P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RE
Sbjct: 302 DGETPEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRE 360
Query: 471 RVRQVGLVALEKLKHAAR 488
R+RQ+ AL KL+H R
Sbjct: 361 RIRQIEAKALRKLRHPNR 378
>gi|390630647|ref|ZP_10258625.1| RNA polymerase sigma factor [Weissella confusa LBAE C39-2]
gi|390484114|emb|CCF30973.1| RNA polymerase sigma factor [Weissella confusa LBAE C39-2]
Length = 377
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 108/356 (30%), Positives = 179/356 (50%), Gaps = 45/356 (12%)
Query: 146 VTCSGVSARQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEEL 205
+ +G+S + L K+ L + KQ + I + ++ Y+K + L
Sbjct: 61 IESAGISVVDENGEPTARALENKKTKLSEKELKQAADAPTGMKINDPVRMYLKEIGRVSL 120
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSLAREKLVMSNV 265
LT E V L+++I+ G A+++L +N+
Sbjct: 121 LTGDEEVALAERIEQG-------------------------------DETAKQELAEANL 149
Query: 266 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 325
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 150 RLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 209
Query: 326 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 384
+ +RT+R+P H+ E + LIR + L++ G P+ + I +++ KVR+ +
Sbjct: 210 DQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIVTDKVRD-------I 262
Query: 385 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERE 441
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 263 LKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYQMLKEQLES-VLDTLTDRE 320
Query: 442 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++ L
Sbjct: 321 ENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLRDFL 376
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGFKFSTYATWW 192
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ L+M +V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVDRV 252
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLKEQLDE 304
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLSTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 491 KM 492
K+
Sbjct: 364 KL 365
>gi|336179421|ref|YP_004584796.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia symbiont of
Datisca glomerata]
gi|334860401|gb|AEH10875.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont
of Datisca glomerata]
Length = 425
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 98/303 (32%), Positives = 173/303 (57%), Gaps = 12/303 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y++ + LL A+ V LSK+++ GL ++KL L LR +LQ+++ +
Sbjct: 132 YLREIGKVPLLNAAQEVELSKRVEAGL-FAEYKLDTDTDLAPELR---RDLQTLVRDGHA 187
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++LV +N+RLV+S+A++Y G + DLVQ G +GL+R +EKFD +KG+K STY WW
Sbjct: 188 AKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGYKFSTYATWW 247
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQ + RAL + +RT+R+P H+ E++ I + +L G P+ + +A L+M ++V
Sbjct: 248 IRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELALELDMPIEQV 307
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
+ ++ D + + G G++ ++ +P A++DE+ ++
Sbjct: 308 VEL-----RRYAQDTVSLETAVGDDGDSVLGDFIEDADATSPADAASYGAMQDEIEG-VL 361
Query: 435 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+L RERE++RL +GL D + T ++ R+GL+RER+RQ+ L +L+ A ++
Sbjct: 362 NSLTPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELRKPAVAGRLR 421
Query: 494 AML 496
L
Sbjct: 422 EFL 424
>gi|323340800|ref|ZP_08081052.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
ruminis ATCC 25644]
gi|417974204|ref|ZP_12615026.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 25644]
gi|323091923|gb|EFZ34543.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
ruminis ATCC 25644]
gi|346329429|gb|EGX97726.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 25644]
Length = 373
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 148/247 (59%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I +N+ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPIPEEIGAEMNLPTEKV 255
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDHAATSPADHAAYELLKEQIE 306
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 307 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 365
Query: 490 KKMEAML 496
K+++ L
Sbjct: 366 KQLKDFL 372
>gi|408790545|ref|ZP_11202163.1| RNA polymerase sigma factor RpoD [Lactobacillus florum 2F]
gi|408520092|gb|EKK20186.1| RNA polymerase sigma factor RpoD [Lactobacillus florum 2F]
Length = 401
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 146/247 (59%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 164 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 223
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P I ++M KV
Sbjct: 224 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPLPIEIGAEMDMPTAKV 283
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
RN + + +E SL GE S++ D +E+ +D A LK+++
Sbjct: 284 RN-------IMKISQEPV-SLETPIGEEDDSHLGDF-IEDKEATSPEDHASYELLKEQLE 334
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 335 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 393
Query: 490 KKMEAML 496
K+++ L
Sbjct: 394 KQLKDFL 400
>gi|406978397|gb|EKE00372.1| hypothetical protein ACD_22C00037G0001 [uncultured bacterium]
Length = 367
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/243 (35%), Positives = 146/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++ L SN+RLV+SIA++Y G DL+Q G GL+R +EK+D +KGFK STY WW
Sbjct: 130 AKDMLTKSNLRLVVSIAKKYMGRGMSFLDLIQEGNKGLIRAVEKYDWTKGFKFSTYATWW 189
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P+ D +A L + +KV
Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRTQRKLMQDLGREPTDDEVAAELETTPEKV 249
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R + K SL+ + + G+ +I D R + P+ + + + +
Sbjct: 250 REILKIAQKTTSLETPIGDDEDSMLGD----FIPDER-QATPYESTSRQLMHENLED-AL 303
Query: 435 VTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+L ERE +++R+ +GLD + LT E++ K G++RER+RQ+ AL KL+H +R++K++
Sbjct: 304 GSLTERESKVLRMRFGLDGSKPLTLEEVGKVFGVTRERIRQIESKALRKLRHPSRRRKLQ 363
Query: 494 AML 496
L
Sbjct: 364 DYL 366
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/246 (36%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 124 AKKDLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 183
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + IA+ +NM+ +KV
Sbjct: 184 IRQAITRAIADQARTIRIPVHMVETINRLIRIQRQLLQDLGREPKPEEIAKKMNMTPEKV 243
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++ +P + LK+++ +
Sbjct: 244 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDKDAQSPVEHAANELLKEQLEE 295
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
I+ TL +RE +++L +GL D + T E++ G++RER+RQ+ A+ KLKH ++
Sbjct: 296 -ILETLTDREENVLKLRFGLKDGKTHTLEEVGSAFGVTRERIRQIEAKAIRKLKHPSKLN 354
Query: 491 KMEAML 496
K++ +
Sbjct: 355 KLKGFM 360
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/306 (33%), Positives = 174/306 (56%), Gaps = 19/306 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSIL 250
+ +K Y+K + LL A+ V L+++I+ GL + +LK R R EL +
Sbjct: 244 DPVKDYLKQIGKVSLLNAAQEVDLARRIEAGLYAE---YKLKNRADEMTSKERRELHFLA 300
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
+ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K ST
Sbjct: 301 QDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFST 360
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ + +A+ L+M
Sbjct: 361 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDM 420
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWAL 425
+ +KV +V RE SL+ GE S D +E++ P V L
Sbjct: 421 TPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAIVPADAVSFTLL 471
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL+
Sbjct: 472 QEQLHH-VLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 530
Query: 485 HAARKK 490
H +R +
Sbjct: 531 HPSRSQ 536
>gi|357392296|ref|YP_004907137.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
gi|311898773|dbj|BAJ31181.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
Length = 541
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 104/306 (33%), Positives = 177/306 (57%), Gaps = 20/306 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSIL 250
+ +K Y+K + LL + V L+K+I+ GL +D KL ++L L+ EL+ I
Sbjct: 243 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLSQADKLAPKLKR---ELEIIA 298
Query: 251 MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIST 310
+ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K ST
Sbjct: 299 EDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 358
Query: 311 YVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNM 369
Y WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ + +A+ L+M
Sbjct: 359 YATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDM 418
Query: 370 SQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWAL 425
+ +KV +V RE SL+ GE S D +E++ P V L
Sbjct: 419 TPEKVI-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFTLL 469
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL+
Sbjct: 470 QEQLHS-VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 528
Query: 485 HAARKK 490
H +R +
Sbjct: 529 HPSRSQ 534
>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]
gi|337292552|emb|CCB90569.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila 2032/99]
Length = 555
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/253 (34%), Positives = 151/253 (59%), Gaps = 8/253 (3%)
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
LQ + + A+ ++V SN+RLV+SIA++Y N G DL+Q G +GL++ +EKF+ +G
Sbjct: 303 LQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRG 362
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIA 364
+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK + E G P+ + +A
Sbjct: 363 YKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGREPTPEELA 422
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
L +S +++R + SL E G GE+ ++ ++P
Sbjct: 423 NELGLSAERIREIYKIAQHPISLQAEV-----GDGGESQFGDFLEDTGADSPAEATGYSI 477
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LKD++N+ +++TL +RER+++ +GL D + T E++ ++RER+RQ+ AL K+
Sbjct: 478 LKDKMNE-VLLTLTDRERKVLIQRFGLNDGKPKTLEEVGVEFNVTRERIRQIEAKALRKM 536
Query: 484 KHAARKKKMEAML 496
+H R K+++A L
Sbjct: 537 RHPTRSKQLKAFL 549
>gi|282891123|ref|ZP_06299627.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str.
Hall's coccus]
gi|338176440|ref|YP_004653250.1| RNA polymerase sigma factor rpoD [Parachlamydia acanthamoebae UV-7]
gi|281498940|gb|EFB41255.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str.
Hall's coccus]
gi|336480798|emb|CCB87396.1| RNA polymerase sigma factor rpoD [Parachlamydia acanthamoebae UV-7]
Length = 546
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 86/243 (35%), Positives = 146/243 (60%), Gaps = 8/243 (3%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ ++V SN+RLV+SIA++Y N G DL+Q G +GL++ +EKF+ +G+K STY WW
Sbjct: 304 AKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWW 363
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ V+RA+ + +RT+R+P H+ E + ++R AK + E G PS + +A L ++ ++V
Sbjct: 364 IRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGREPSPEELANELGITAERV 423
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
R + SL E G GE+ ++ ++P LKD++N+ ++
Sbjct: 424 REIYKIAQHPISLQAEV-----GDGGESQFGDFLEDTGADSPAEATGYSILKDKMNE-VL 477
Query: 435 VTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
TL +RER+++ +G LD + T E++ ++RER+RQ+ AL K++H R K+++
Sbjct: 478 ATLTDRERKVLIQRFGLLDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMRHPTRSKQLK 537
Query: 494 AML 496
A L
Sbjct: 538 AFL 540
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/295 (34%), Positives = 165/295 (55%), Gaps = 32/295 (10%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLARE----------KLVMSNVR 266
I G+ +DD ++ LKE I R L + E SLAR +L+ +N+R
Sbjct: 81 IPEGVDIDDPVRMYLKE-------IGRIPLLTPEEEVSLARRMEAGDDEAKRRLIEANLR 133
Query: 267 LVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVE 326
LV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++RA+ +
Sbjct: 134 LVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAIAD 193
Query: 327 NSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVF 385
+RT+R+P H+ E + LIR ++ L+E G P + IA +++S+ KVR + +
Sbjct: 194 QARTIRIPVHMVETINKLIRISRQLLQELGREPLPEEIAREMDISEDKVREIQKIAQEPV 253
Query: 386 SLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
SL+ GE S++ D ++ P L+++++ ++ TL ERE+
Sbjct: 254 SLETPI--------GEEEDSHLGDFIEDQDAQAPAEEASFTLLREQLDD-VLKTLTEREQ 304
Query: 443 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
++RL +GLD T E++ + G++RER+RQ+ L KL+H +R KK++ L
Sbjct: 305 RVLRLRFGLDDGRARTLEEVGQEFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 359
>gi|108763751|ref|YP_633357.1| RNA polymerase sigma factor RpoD [Myxococcus xanthus DK 1622]
gi|133312|sp|P17531.1|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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 590 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 640
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 641 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 699
Query: 490 KKMEAML 496
K++ + +
Sbjct: 700 KRLRSFV 706
>gi|335996715|ref|ZP_08562632.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis SPM0211]
gi|335351785|gb|EGM53276.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis SPM0211]
Length = 373
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 148/247 (59%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 195
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I +N+ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLGREPIPEEIGAEMNLPTEKV 255
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDHAATSPADHAAYELLKEQIE 306
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 307 S-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 365
Query: 490 KKMEAML 496
K+++ L
Sbjct: 366 KQLKDFL 372
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 153/261 (58%), Gaps = 22/261 (8%)
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L+ + + A+EKLV +N RLV+SIA++Y G DL+Q G +GL+R ++KFD KG
Sbjct: 169 LEDTIRKGHYAKEKLVEANYRLVVSIAKKYTQRGLLFLDLIQEGNMGLMRAVDKFDYEKG 228
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIA 364
FK STY WWIRQ ++RA+ + +RT+R+P H+ E + +IR + ++E G +++ IA
Sbjct: 229 FKFSTYATWWIRQAITRAVADQARTIRIPVHMVETINKMIRIQRQLVQELGRDATIEEIA 288
Query: 365 EYLNMSQKKVRN----ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 420
E ++++ +KV+N A E I SL GE S + D + N +
Sbjct: 289 EKMDITPEKVQNIQRIAKEPI------------SLEAPVGEEEDSSLGDFISDPNALNP- 335
Query: 421 DDWALKDEVNKL---IIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVG 476
D+ +++ V K ++ TL +RE +++RL YG LD + T E++ + G++RER+RQ+
Sbjct: 336 HDYMMQEMVKKTLDEVLETLTDREEKVLRLRYGLLDGKTHTLEEVGREFGVTRERIRQIE 395
Query: 477 LVALEKLKHAARKKKMEAMLV 497
AL KL+ R+ K++ +
Sbjct: 396 AKALRKLRSPQRQNKLKEFYI 416
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/234 (38%), Positives = 141/234 (60%), Gaps = 13/234 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR++++ +N+RLV+S+A++Y N G D+ DLVQ G IGL R ++KFD + G+K STY YWW
Sbjct: 105 ARDRMMSANLRLVVSVAKKYQNQGLDLLDLVQEGAIGLERAVDKFDPAMGYKFSTYAYWW 164
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 374
IRQG++RA+ ++RT+RLP H+ E+L +R L +K G P+ +A + + QK +
Sbjct: 165 IRQGMTRAIDNSARTIRLPIHISEKLSKMRRVSRELSQKSGRQPTRLEMATAMGIEQKDL 224
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
+ SLD A GE S + + + N P G+D K+ +
Sbjct: 225 EDLISQSAPCASLDAHAR-------GEEDRSTLGELIPDPNGEEPMEGMDRTIQKEHLGT 277
Query: 432 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
+ L ERE++I++L +GLD +E LT +I ++I +SRERVRQ+ A+ KL+
Sbjct: 278 W-LTQLNEREQKIMKLRFGLDGEEPLTLAEIGRQINVSRERVRQLEAKAILKLR 330
>gi|4587113|dbj|BAA76622.1| RpoT [Mycobacterium leprae]
Length = 576
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 176/308 (57%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL L ER G+ L + R ++ I
Sbjct: 274 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER-GTKLPTAQRRDMMWI 332
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 333 CRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFS 392
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 393 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 450
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
++++ +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 451 MDITPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 502
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 503 LLQDQLQS-VLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 561
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 562 LRHPSRSQ 569
>gi|442804827|ref|YP_007372976.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
gi|442740677|gb|AGC68366.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
Length = 443
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/286 (35%), Positives = 169/286 (59%), Gaps = 20/286 (6%)
Query: 221 GLSLDDH-KLRLKERLGSSLRISRPELQ-SILMECSL--AREKLVMSNVRLVMSIAQRYD 276
G+++DD ++ LKE L + E++ + ME +++L +N+RLV+SIA+RY
Sbjct: 167 GVAIDDPVRMYLKEIGKIPLLTAEEEIELAKRMEAGEEEPKKRLAEANLRLVVSIAKRYV 226
Query: 277 NMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNH 336
G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H
Sbjct: 227 GRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 286
Query: 337 LHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSL 395
+ E + LIR ++ L+E G P+ + IA+ + MS +KVR ++ + +E SL
Sbjct: 287 MVETINKLIRVSRQLLQELGREPTPEEIAQEMGMSVEKVR-------EIMKISQEPV-SL 338
Query: 396 NGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL 451
GE S++ D + ++ D+ A LK+++ ++ TL RE +++RL +GL
Sbjct: 339 ETPIGEEEDSHLGD-FIPDDDAPAPDESAAFTLLKEQLMD-VLDTLTPREEKVLRLRFGL 396
Query: 452 DK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 397 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 442
>gi|365904101|ref|ZP_09441860.1| RNA polymerase sigma factor RpoD [Lactobacillus versmoldensis KCTC
3814]
Length = 383
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 148/247 (59%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD GFK STY WW
Sbjct: 146 AKQKLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRLGFKFSTYATWW 205
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I ++M+ KV
Sbjct: 206 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMATTKV 265
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R+ + + +E SL GE S++ D +E++ +D A LK+++
Sbjct: 266 RD-------ILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDATSPEDHASYELLKEQLE 316
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 317 N-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 375
Query: 490 KKMEAML 496
K+++ L
Sbjct: 376 KQLKDFL 382
>gi|354565057|ref|ZP_08984233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353550183|gb|EHC19622.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 389
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 177/314 (56%), Gaps = 16/314 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISRPE 245
+ K + LL E V L+++++ +++ + L++ LG + L+I+ +
Sbjct: 81 AFFKEMARYPLLKPDEEVELARRVRFLEEVNEIQAALRQELGHQPTKASIAAHLQITEKQ 140
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 141 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 200
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L+++ G P+ +A
Sbjct: 201 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQRLGRNPNEIEMA 260
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E L + +++R + + SL+ G +T + ++ +P +++
Sbjct: 261 EALEIPPQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNESM 315
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 316 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 375
Query: 484 KHAARKKKMEAMLV 497
+ K+++ L+
Sbjct: 376 RRPHIAKRLKGWLI 389
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 183/311 (58%), Gaps = 20/311 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLRISR 243
++ Y++ + LLTH + + L K+++ ++L + + L + LG ++ ++
Sbjct: 2 VRTYLQEIGRVPLLTHEQEIILGKQVQQMMALREKRDALTKELGREATFEEWAAACNLTP 61
Query: 244 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
EL +IL A++K++ +N+RLV+S+A++Y ++ DLVQ G +GL RG+EKFD +
Sbjct: 62 TELCNILKRGERAKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFDPT 121
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G + +
Sbjct: 122 RGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATPAE 181
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A+ L + +++R + SLD + + GE + D+ + + V+
Sbjct: 182 VAKALELEPEQIREYLTLARQPVSLDLRVGDNQDTELGE----LLEDDSLSPEQFTTVE- 236
Query: 423 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 481
+L+D+VN L + L ++R+++ L YGL D + L+ + +++ LSRERVRQ+ AL+
Sbjct: 237 -SLRDDVN-LWLAELTPQQRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALD 294
Query: 482 KLKHAARKKKM 492
L+ R+++M
Sbjct: 295 HLRR--RRQQM 303
>gi|220906934|ref|YP_002482245.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7425]
gi|219863545|gb|ACL43884.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 378
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 176/319 (55%), Gaps = 36/319 (11%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSL---------- 239
++ ++ Y++ + LL E + L++KI L L+ R++E+L L
Sbjct: 67 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELE----RIREQLYDKLDREPQDQEWA 122
Query: 240 -RISRPELQSILMECSL---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 295
+ P LQS + A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 123 GEVDMP-LQSFRHRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 181
Query: 296 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 354
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E
Sbjct: 182 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEM 241
Query: 355 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 413
G P+ + IA + M+ +K+R F P SL G+ S + D +E
Sbjct: 242 GRKPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 291
Query: 414 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 469
++ P V L++++ + ++ TL RER++++L YGLD + T E+I + ++R
Sbjct: 292 SDGETPEDQVSKNLLREDL-ETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTR 350
Query: 470 ERVRQVGLVALEKLKHAAR 488
ER+RQ+ AL KL+H R
Sbjct: 351 ERIRQIEAKALRKLRHPNR 369
>gi|229916320|ref|YP_002884966.1| RpoD subfamily RNA polymerase sigma-70 subunit [Exiguobacterium sp.
AT1b]
gi|229467749|gb|ACQ69521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium
sp. AT1b]
Length = 364
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 150/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 127 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYMKGFKFSTYATWW 186
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IA+ + ++ +KV
Sbjct: 187 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIAKEMELTPEKV 246
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 247 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDAMAPQDAAAYELLKEQLE 297
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 298 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 356
Query: 490 KKMEAML 496
K+++ L
Sbjct: 357 KRLKDFL 363
>gi|153816193|ref|ZP_01968861.1| hypothetical protein RUMTOR_02441 [Ruminococcus torques ATCC 27756]
gi|145846528|gb|EDK23446.1| RNA polymerase sigma factor RpoD [Ruminococcus torques ATCC 27756]
Length = 383
Score = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 146 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 205
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ L+M ++V
Sbjct: 206 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAKELDMPVERV 265
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 266 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 317
Query: 432 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 318 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 376
Query: 491 KM 492
K+
Sbjct: 377 KL 378
>gi|397677341|ref|YP_006518879.1| RNA polymerase sigma-70 subunit RpoD [Zymomonas mobilis subsp.
mobilis ATCC 29191]
gi|395398030|gb|AFN57357.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis ATCC 29191]
Length = 671
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 150/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A+ ++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 429 EARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 488
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E G P+ + +AE L+M
Sbjct: 489 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPTPEELAERLSMP 548
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 549 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 600
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 601 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 659
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 660 SRSRKMRSFL 669
>gi|431794831|ref|YP_007221736.1| sigma-70 family RNA polymerase sigma factor [Desulfitobacterium
dichloroeliminans LMG P-21439]
gi|430785057|gb|AGA70340.1| RNA polymerase sigma factor, sigma-70 family [Desulfitobacterium
dichloroeliminans LMG P-21439]
Length = 393
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 156 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWW 215
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA +++S ++V
Sbjct: 216 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIATQMDISVERV 275
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D + + P LK+++ +
Sbjct: 276 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIPDEDAPAPSEAASFILLKEQLEE 327
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL RE +++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K
Sbjct: 328 -VLETLTPREEKVLRLRFGLDDGRTRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSK 386
Query: 491 KMEAML 496
K++ L
Sbjct: 387 KLKDYL 392
>gi|56552519|ref|YP_163358.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis
ZM4]
gi|384412419|ref|YP_005621784.1| 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|335932793|gb|AEH63333.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis ATCC 10988]
Length = 671
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 150/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A+ ++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 429 EARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 488
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E G P+ + +AE L+M
Sbjct: 489 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPTPEELAERLSMP 548
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 549 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 600
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 601 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 659
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 660 SRSRKMRSFL 669
>gi|356509511|ref|XP_003523491.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 558
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 103/304 (33%), Positives = 163/304 (53%), Gaps = 17/304 (5%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR---------ISRPELQSILMECSL 255
LLT E ++LS I+ L L+ + L ER GS + + L+ L
Sbjct: 260 LLTPTEEIKLSAGIQDLLKLEKIQEDLAERFGSQPTFAQWAAVAGVDQKTLRKRLNYGIF 319
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL++G EKFD +KGFK STY +WW
Sbjct: 320 CKDKMIKSNIRLVISIAKNYQGSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYAHWW 379
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 374
I+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P + +AE +S K++
Sbjct: 380 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRL 439
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 434
SL+++ + N P E I+D E + + KD L
Sbjct: 440 NAVLMTPKAPRSLEQKIGINQNLKPSEV----ISDPDAETAEEQLLKQFMKKDLEEALD- 494
Query: 435 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 493
+L RER+++R +G+D T ++I + +G+SRER+RQ+ A +KLK+ R ++
Sbjct: 495 -SLNPRERQVVRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLKNKKRTNHLQ 553
Query: 494 AMLV 497
LV
Sbjct: 554 QYLV 557
>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|418635282|ref|ZP_13197661.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis
VCU139]
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]
gi|374842004|gb|EHS05456.1| RNA polymerase sigma factor RpoD [Staphylococcus lugdunensis
VCU139]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 155/244 (63%), Gaps = 9/244 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R ++KFD +K
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVKKFDPTK 223
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ S+ +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATKSQIIRLPVHITEKLNRIKKAQRKISQMRGRTATVEEI 283
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A+ L ++ + VR + + SL+ + G +T + + ++ H V +
Sbjct: 284 AQELALTPEAVRELLMTVPRSVSLEIKV-----GKEKDTELLDLLEIEAVSSENHFVYE- 337
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RERE+I L YG LD + + DI + + LSRERVRQ+ L AL+K
Sbjct: 338 SLQRDIREL-LADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIELKALQK 396
Query: 483 LKHA 486
L+ +
Sbjct: 397 LRQS 400
>gi|414077595|ref|YP_006996913.1| RpoD family RNA polymerase sigma factor SigC [Anabaena sp. 90]
gi|413971011|gb|AFW95100.1| RpoD family RNA polymerase sigma factor SigC [Anabaena sp. 90]
Length = 411
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 95/274 (34%), Positives = 160/274 (58%), Gaps = 12/274 (4%)
Query: 221 GLSLDDHKLRL---KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 277
G+SL D K L K R ++ EL+ + + A+ ++ +N+RLV+S+A++Y N
Sbjct: 134 GISLPDLKPTLANGKRRWAEIANLTVEELEQVQTQGLQAKSHMIKANLRLVVSVAKKYQN 193
Query: 278 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 337
G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+
Sbjct: 194 RGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHI 253
Query: 338 HERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 396
E+L I+ A+ ++ +EKG TP+++ + L+M+ +VR + + SL+ + +
Sbjct: 254 TEKLNKIKKAQRKIAQEKGRTPTLEDLGIELDMTPAQVREVLLRVPRSVSLETKVGKDKD 313
Query: 397 GLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 455
GE + P + +L +++ L+ G RER++I + +GL D
Sbjct: 314 TELGELLETDTI------TPEEMLMRESLHKDLHSLLDDLTG-RERDVILMRFGLSDGHA 366
Query: 456 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+ +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 367 YSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 400
>gi|380302336|ref|ZP_09852029.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium squillarum
M-6-3]
Length = 458
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 180/308 (58%), Gaps = 23/308 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRP--ELQS 248
+ +K Y+K + LL A+ V L+++I+ GL + KL+ E S+ ++P EL
Sbjct: 159 DPVKDYLKQIGKVALLNAAQEVELAERIEAGLYAE-QKLKRDE----SIVRTKPGRELAM 213
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
I+ + A++ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD SKG+K
Sbjct: 214 IVEDGRAAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKF 273
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ + +A+ L
Sbjct: 274 STYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKEL 333
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDW 423
+M+ +KV +V RE SL+ GE S D +E++ P V
Sbjct: 334 DMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPADAVSFT 384
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + K
Sbjct: 385 LLQEQLHS-VLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 443
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 444 LRHPSRSQ 451
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 171/314 (54%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L+ LG +
Sbjct: 66 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRNLGRYPSDKEWAQQVG 125
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 126 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 185
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 186 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 245
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 246 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 295
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 296 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 354
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 355 IEAKALRKLRHPNR 368
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/315 (32%), Positives = 178/315 (56%), Gaps = 24/315 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQ 247
L + ++ Y+K + +LLT +E V L+ KI+ G + RL+ + ++R E Q
Sbjct: 147 LTGDPVRMYLKEIGKVDLLTASEEVHLAMKIEAGTEATE---RLEAADRGEIELTRAE-Q 202
Query: 248 SILMECSL----AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
LM A++ L+ +N+RL +SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 203 RRLMRIEQVGLEAKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYT 262
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 362
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ +
Sbjct: 263 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPTPEE 322
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 418
I + +S +VR ++ + +E SL GE S + D +E++ P
Sbjct: 323 IGAEMGISADRVR-------EIQKISQEPV-SLETPIGEEEDSSLGDF-IEDSSAVAPPE 373
Query: 419 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
D L++++ + ++ +L +RER++I+ +GL D T E++ + G++RER+RQ+
Sbjct: 374 AASDSMLREQLEQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIES 432
Query: 478 VALEKLKHAARKKKM 492
L KL+H +R ++
Sbjct: 433 KTLAKLRHPSRSGRL 447
>gi|160915039|ref|ZP_02077252.1| hypothetical protein EUBDOL_01047 [Eubacterium dolichum DSM 3991]
gi|158432838|gb|EDP11127.1| RNA polymerase sigma factor RpoD [Eubacterium dolichum DSM 3991]
Length = 398
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 95/251 (37%), Positives = 152/251 (60%), Gaps = 19/251 (7%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 158 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 217
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 373
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G P+ + IA + N+S +K
Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPTAEEIAAKMENISPEK 277
Query: 374 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 428
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 278 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 327
Query: 429 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 328 INT-VLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 386
Query: 488 RKKKMEAMLVK 498
R K+++ + K
Sbjct: 387 RSKRLKDFVDK 397
>gi|327398426|ref|YP_004339295.1| RpoD subfamily RNA polymerase sigma-70 subunit [Hippea maritima DSM
10411]
gi|327181055|gb|AEA33236.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Hippea maritima
DSM 10411]
Length = 491
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/242 (36%), Positives = 153/242 (63%), Gaps = 10/242 (4%)
Query: 258 EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIR 317
++++ +N+RLV+SIA+++ N G DL+Q G IGL++ ++KFD KGFK STY WWIR
Sbjct: 256 QRMIKANLRLVVSIAKKHLNRGLSFLDLIQEGNIGLMKSVDKFDYKKGFKFSTYATWWIR 315
Query: 318 QGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 376
Q +SRA+ + +RT+R+P H+ E + ++R +KL ++E G P+ +AEYL M ++K+++
Sbjct: 316 QSISRAIADQARTIRIPVHMIETINKIVRASKLLIQENGKEPTAQELAEYLGMDEEKIKS 375
Query: 377 ATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLIIV 435
+ + SL+ G +TH +I D + E +P V LK++V + ++
Sbjct: 376 IIKIAKEPISLETPI-----GDDNDTHLEDFIEDTKSE-SPLDYVIKSNLKEKVEE-VLS 428
Query: 436 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 494
TL +RER+++ + YG+ D T E++ K +G++RERVRQ+ AL KL+H R + + +
Sbjct: 429 TLTDRERKVLMMRYGIGDGFDHTLEEVGKVLGVTRERVRQIEAKALRKLRHPKRSRVLAS 488
Query: 495 ML 496
+
Sbjct: 489 FV 490
>gi|379795920|ref|YP_005325918.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
MSHR1132]
gi|356872910|emb|CCE59249.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
MSHR1132]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/250 (34%), Positives = 151/250 (60%), Gaps = 14/250 (5%)
Query: 252 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 311
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 432 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 491
Query: 312 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 370
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +A L+M
Sbjct: 492 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEEGREPTPEEMAARLSMP 551
Query: 371 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 427
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 552 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAVIPVDAAIQANLKE 603
Query: 428 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 486
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 604 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 662
Query: 487 ARKKKMEAML 496
+R +KM + L
Sbjct: 663 SRSRKMRSFL 672
>gi|357389445|ref|YP_004904284.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054]
gi|311895920|dbj|BAJ28328.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054]
Length = 389
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 103/312 (33%), Positives = 176/312 (56%), Gaps = 18/312 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK---ERLGSSLRISRPELQSI 249
L+ Y++ + LLT E V L++ I+ GL ++ R+ ER + R+ +L +
Sbjct: 87 LRQYLREIGRVRLLTAVEEVELARAIEAGLFAEEALDRVPPAAERRPADERLLG-DLDRL 145
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
++ +A+ +L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD ++G+K S
Sbjct: 146 VVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTLLDLIQEGNVGLIRAVEKFDYARGYKFS 205
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 368
TY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ + L
Sbjct: 206 TYATWWIRQAMSRALADQARTIRVPVHVVELINRVLRVQRGLLQERGVEPTAAEVGAVLQ 265
Query: 369 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWAL 425
+ ++VR +V L +E SL+ GE + D + +P L
Sbjct: 266 LPPERVR-------EVLKLAQEPV-SLHTPVGEEDDVALGDLIEDADAASPPESAAFLLL 317
Query: 426 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
++ + ++ TLGERER++++L YGLD T E+I G++RER+RQ+ L KL+
Sbjct: 318 REHLEA-VLATLGERERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIRQIEAKTLGKLR 376
Query: 485 HAARKKKMEAML 496
A ++ L
Sbjct: 377 DHAFADQLRGYL 388
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 103/331 (31%), Positives = 184/331 (55%), Gaps = 32/331 (9%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
+Q+ K L + P + ++ Y++ + +LLT + V +++++ ++L L
Sbjct: 11 VQKTKKKSLAADKKPRATDDIVRSYLQEIGRVDLLTREQEVIFAQQVQLMMNL----LAA 66
Query: 232 KERLGSSLR--------ISRPELQSILMECSL-----AREKLVMSNVRLVMSIAQRYDNM 278
KE L L R EL + ++E L A++K++ +N+RLV+++A++Y +
Sbjct: 67 KEELAVKLDHEPTLQEWADRVELGAEVLELQLSQGHQAKQKMIQANLRLVVAVAKKYQHR 126
Query: 279 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLH 338
+ DL+Q G +GL RG++KFD + G+K STY YWWIRQG++RA+ + RT+RLP H+
Sbjct: 127 NLEFMDLIQEGTLGLERGVDKFDPALGYKFSTYAYWWIRQGITRAIAQQGRTIRLPIHVF 186
Query: 339 ERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNG 397
E+L I+ + L ++ G P+ IA L+++ +VR + L R+ F SL
Sbjct: 187 EKLNKIKRVQRELSQQLGRVPTTAEIANALSLTPSQVR-------ECLYLARQPF-SLEA 238
Query: 398 LPGETHHSYIADNRVENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYGL-DK 453
GE + + D ++ P +D+A+++ ++ + ++ L ++REI+ L +GL D
Sbjct: 239 RVGEQQDTELQDILEDDGP--SPEDYAVEESLHQDLQDLLAKLSPQQREILTLRFGLTDG 296
Query: 454 ECLTWEDISKRIGLSRERVRQVGLVALEKLK 484
L+ I R+G+SRERVRQ+ AL L+
Sbjct: 297 YELSLAQIGDRMGISRERVRQIEQKALSLLR 327
>gi|425464343|ref|ZP_18843665.1| RNA polymerase sigma-C factor [Microcystis aeruginosa PCC 9809]
gi|389833688|emb|CCI21586.1| RNA polymerase sigma-C factor [Microcystis aeruginosa PCC 9809]
Length = 414
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 155/244 (63%), Gaps = 9/244 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R ++KFD +K
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVKKFDPTK 223
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 363
G++ STY YWWIRQG++RA+ S+ +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATKSQIIRLPVHITEKLNRIKKAQRKISQMRGRTATVEEI 283
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A+ L ++ + VR + + SL+ + G +T + + ++ H V +
Sbjct: 284 AQELALTPEAVRELLMTVPRSVSLEIKV-----GKEKDTELLDLLEIEAVSSENHFVYE- 337
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L+ ++ +L + L RERE+I L YG LD + + DI + + LSRERVRQ+ L AL+K
Sbjct: 338 SLQRDIREL-LADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIELKALQK 396
Query: 483 LKHA 486
L+ +
Sbjct: 397 LRQS 400
>gi|392949005|ref|ZP_10314604.1| RNA polymerase sigma factor 42 RpoD [Lactobacillus pentosus KCA1]
gi|334880406|emb|CCB81137.1| RNA polymerase sigma factor [Lactobacillus pentosus MP-10]
gi|339638991|emb|CCC18197.1| RNA polymerase sigma factor [Lactobacillus pentosus IG1]
gi|392435824|gb|EIW13749.1| RNA polymerase sigma factor 42 RpoD [Lactobacillus pentosus KCA1]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 131 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 190
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKV 250
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + + D A LK+++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEG 302
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 361
Query: 491 KMEAML 496
+++ L
Sbjct: 362 QLKDFL 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 174/314 (55%), Gaps = 16/314 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSS---------LRISRPE 245
+ K + LL E V L+ +++ + D + L+E+ G S ++ +
Sbjct: 88 AFFKEMARYPLLKPDEEVELAHRVRFLEEVKDLQAALEEQFGHSATKGEIANKFDLNEKQ 147
Query: 246 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 305
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 148 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 207
Query: 306 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 364
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 208 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEAEMA 267
Query: 365 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 424
E+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 268 EFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 322
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 483
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 323 MRQEIWEVLGDVLTSREKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQIQSKAMRKL 382
Query: 484 KHAARKKKMEAMLV 497
+ K+++ L+
Sbjct: 383 RRPHIAKRLKGWLI 396
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/238 (37%), Positives = 139/238 (58%), Gaps = 14/238 (5%)
Query: 264 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 323
N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +G+K STY WWIRQ ++RA
Sbjct: 313 NLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWWIRQAITRA 372
Query: 324 LVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 382
+ + +RT+R+P H+ E + +R AK L+E G P+++ AE +S ++ R +
Sbjct: 373 IADQARTIRIPVHMIETMSKLRKVAKKLLQEMGREPTLEETAEAAGVSLEETRRVMKISR 432
Query: 383 KVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGE 439
SLDR GE+ SY D ++N P LKD+++ ++ TL
Sbjct: 433 HPISLDRPV--------GESEDSYFGDFIEDDNTESPVMAATQEMLKDKIDN-VLKTLTY 483
Query: 440 REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
REREII+L YGL D T E++ + ++RERVRQ+ A+ KL+H R K+++ L
Sbjct: 484 REREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRSKQLKGFL 541
>gi|444799|prf||1908232B RNA polymerase:SUBUNIT=sigma factor
Length = 340
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 101 AEFAKQMLAEANLRLVVSIAKRYSGRGNQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 160
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 371
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 161 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 220
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 428
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 221 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 272
Query: 429 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 273 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 331
Query: 488 RKKKMEAML 496
R K + +
Sbjct: 332 RSKPLRDFM 340
>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|379021343|ref|YP_005298005.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus M013]
gi|384547794|ref|YP_005737047.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
ED133]
gi|384550388|ref|YP_005739640.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp.
aureus JKD6159]
gi|384862163|ref|YP_005744883.1| RNA polymerase sigma-70 factor RpoD [Staphylococcus aureus subsp.
aureus str. JKD6008]
gi|384864782|ref|YP_005750141.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43)
[Staphylococcus aureus subsp. aureus ECT-R 2]
gi|384867465|ref|YP_005747661.1| DNA-directed RNA polymerase sigma subunit RpoD [Staphylococcus
aureus subsp. aureus TCH60]
gi|384870102|ref|YP_005752816.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus T0131]
gi|385781846|ref|YP_005758017.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus 11819-97]
gi|386729262|ref|YP_006195645.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
71193]
gi|386831171|ref|YP_006237825.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus HO
5096 0412]
gi|387143168|ref|YP_005731561.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
TW20]
gi|387150704|ref|YP_005742268.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus 04-02981]
gi|387602901|ref|YP_005734422.1| RNA polymerase sigma factor RpoD (Sigma-A) (Sigma-43)
[Staphylococcus aureus subsp. aureus ST398]
gi|387780653|ref|YP_005755451.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
LGA251]
gi|404478912|ref|YP_006710342.1| RNA polymerase sigma factor [Staphylococcus aureus 08BA02176]
gi|415682363|ref|ZP_11447679.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CGS00]
gi|415686251|ref|ZP_11450388.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CGS01]
gi|415692679|ref|ZP_11454599.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CGS03]
gi|416840030|ref|ZP_11903349.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O11]
gi|416845839|ref|ZP_11906240.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus O46]
gi|417649352|ref|ZP_12299156.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21189]
gi|417651232|ref|ZP_12300995.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21172]
gi|417797335|ref|ZP_12444531.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21305]
gi|417798948|ref|ZP_12446102.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21310]
gi|417801415|ref|ZP_12448507.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21318]
gi|417887943|ref|ZP_12532062.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21195]
gi|417889892|ref|ZP_12533971.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21200]
gi|417892422|ref|ZP_12536471.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21201]
gi|417896754|ref|ZP_12540697.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21235]
gi|417905424|ref|ZP_12549235.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21269]
gi|418276950|ref|ZP_12891704.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21178]
gi|418284177|ref|ZP_12896909.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21202]
gi|418285002|ref|ZP_12897702.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21209]
gi|418309094|ref|ZP_12920669.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21194]
gi|418310147|ref|ZP_12921697.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21331]
gi|418313154|ref|ZP_12924648.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21334]
gi|418316373|ref|ZP_12927811.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21340]
gi|418319485|ref|ZP_12930865.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21232]
gi|418424710|ref|ZP_12997824.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS1]
gi|418427704|ref|ZP_13000709.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS2]
gi|418430546|ref|ZP_13003457.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS3a]
gi|418433689|ref|ZP_13006281.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS4]
gi|418437184|ref|ZP_13008980.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS5]
gi|418440084|ref|ZP_13011785.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS6]
gi|418443102|ref|ZP_13014701.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS7]
gi|418446164|ref|ZP_13017638.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS8]
gi|418449178|ref|ZP_13020564.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS9]
gi|418451991|ref|ZP_13023325.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS10]
gi|418454985|ref|ZP_13026244.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS11a]
gi|418457863|ref|ZP_13029062.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS11b]
gi|418558923|ref|ZP_13123470.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21252]
gi|418562721|ref|ZP_13127178.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21262]
gi|418564891|ref|ZP_13129312.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21264]
gi|418566983|ref|ZP_13131348.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21272]
gi|418569540|ref|ZP_13133866.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21283]
gi|418574489|ref|ZP_13138658.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21333]
gi|418579486|ref|ZP_13143581.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1114]
gi|418582488|ref|ZP_13146566.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1605]
gi|418597229|ref|ZP_13160762.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21342]
gi|418600037|ref|ZP_13163511.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21343]
gi|418601023|ref|ZP_13164471.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21345]
gi|418640390|ref|ZP_13202622.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-3]
gi|418641670|ref|ZP_13203875.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-24]
gi|418648411|ref|ZP_13210455.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-88]
gi|418650482|ref|ZP_13212500.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-91]
gi|418652795|ref|ZP_13214758.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-99]
gi|418657655|ref|ZP_13219418.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-105]
gi|418662053|ref|ZP_13223607.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-122]
gi|418873264|ref|ZP_13427574.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-125]
gi|418875501|ref|ZP_13429757.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC93]
gi|418878479|ref|ZP_13432714.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1165]
gi|418881245|ref|ZP_13435462.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1213]
gi|418884093|ref|ZP_13438286.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1769]
gi|418886826|ref|ZP_13440974.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1150]
gi|418889376|ref|ZP_13443509.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1524]
gi|418892291|ref|ZP_13446404.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1176]
gi|418895324|ref|ZP_13449419.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1057]
gi|418898195|ref|ZP_13452265.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC341D]
gi|418901066|ref|ZP_13455122.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1214]
gi|418903868|ref|ZP_13457909.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1770]
gi|418906506|ref|ZP_13460532.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC345D]
gi|418909413|ref|ZP_13463409.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG149]
gi|418912172|ref|ZP_13466153.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG547]
gi|418914659|ref|ZP_13468631.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC340D]
gi|418917458|ref|ZP_13471417.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1267]
gi|418920642|ref|ZP_13474574.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC348]
gi|418923243|ref|ZP_13477159.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1233]
gi|418925821|ref|ZP_13479723.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG2018]
gi|418928911|ref|ZP_13482797.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1612]
gi|418931866|ref|ZP_13485701.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1750]
gi|418934531|ref|ZP_13488353.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC128]
gi|418948541|ref|ZP_13500839.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-157]
gi|418952144|ref|ZP_13504186.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-160]
gi|418955676|ref|ZP_13507613.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-189]
gi|418978284|ref|ZP_13526085.1| RpoD [Staphylococcus aureus subsp. aureus DR10]
gi|418982567|ref|ZP_13530275.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1242]
gi|418986233|ref|ZP_13533918.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1500]
gi|418988628|ref|ZP_13536300.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1835]
gi|418991489|ref|ZP_13539150.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1096]
gi|418994287|ref|ZP_13541922.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG290]
gi|419773135|ref|ZP_14299146.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CO-23]
gi|419784708|ref|ZP_14310471.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-M]
gi|421148559|ref|ZP_15608219.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus str. Newbould 305]
gi|422742655|ref|ZP_16796658.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus MRSA177]
gi|422746146|ref|ZP_16800079.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus MRSA131]
gi|424768978|ref|ZP_18196215.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CM05]
gi|424785396|ref|ZP_18212199.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus CN79]
gi|440707442|ref|ZP_20888141.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21282]
gi|440735012|ref|ZP_20914623.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus DSM 20231]
gi|443637651|ref|ZP_21121723.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21236]
gi|448740612|ref|ZP_21722588.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus KT/314250]
gi|448743077|ref|ZP_21724991.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus KT/Y21]
gi|60390420|sp|Q6G905.1|RPOD_STAAS RecName: Full=RNA polymerase sigma factor RpoD
gi|60390434|sp|Q6GGD8.1|RPOD_STAAR RecName: Full=RNA polymerase sigma factor RpoD
gi|60393872|sp|P0A0I8.1|RPOD_STAAM RecName: Full=RNA polymerase sigma factor RpoD
gi|60393873|sp|P0A0I9.1|RPOD_STAAW RecName: Full=RNA polymerase sigma factor RpoD
gi|60393874|sp|P0A0J0.1|RPOD_STAA8 RecName: Full=RNA polymerase sigma factor RpoD
gi|81694388|sp|Q5HFJ9.1|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]
gi|334266827|gb|EGL85297.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21305]
gi|334275110|gb|EGL93411.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21310]
gi|334276864|gb|EGL95110.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21318]
gi|341840020|gb|EGS81540.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21235]
gi|341843700|gb|EGS84922.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21269]
gi|341855585|gb|EGS96429.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21200]
gi|341856972|gb|EGS97799.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21195]
gi|341857587|gb|EGS98399.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21201]
gi|344177755|emb|CCC88234.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
LGA251]
gi|359830652|gb|AEV78630.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus M013]
gi|364522835|gb|AEW65585.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus 11819-97]
gi|365165041|gb|EHM56871.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21202]
gi|365172013|gb|EHM62758.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21209]
gi|365173933|gb|EHM64362.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21178]
gi|365235245|gb|EHM76165.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21194]
gi|365236425|gb|EHM77314.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21334]
gi|365237604|gb|EHM78450.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21331]
gi|365240604|gb|EHM81376.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21232]
gi|365241057|gb|EHM81812.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21340]
gi|371973825|gb|EHO91173.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21262]
gi|371976028|gb|EHO93320.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21264]
gi|371976273|gb|EHO93563.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21252]
gi|371979216|gb|EHO96451.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21333]
gi|371982687|gb|EHO99835.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21272]
gi|371985669|gb|EHP02730.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21283]
gi|374395465|gb|EHQ66732.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21342]
gi|374395626|gb|EHQ66889.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21343]
gi|374400270|gb|EHQ71389.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21345]
gi|375014954|gb|EHS08625.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-3]
gi|375018125|gb|EHS11705.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-24]
gi|375020963|gb|EHS14470.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-99]
gi|375026324|gb|EHS19707.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-88]
gi|375027768|gb|EHS21126.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-91]
gi|375030135|gb|EHS23459.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-105]
gi|375036998|gb|EHS30052.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-122]
gi|375366455|gb|EHS70452.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-125]
gi|375369802|gb|EHS73663.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-160]
gi|375370762|gb|EHS74560.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-189]
gi|375371874|gb|EHS75634.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-157]
gi|377694601|gb|EHT18966.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1165]
gi|377695130|gb|EHT19494.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1057]
gi|377697513|gb|EHT21868.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1114]
gi|377702463|gb|EHT26785.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1214]
gi|377704277|gb|EHT28587.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1500]
gi|377704848|gb|EHT29157.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1242]
gi|377710898|gb|EHT35136.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1605]
gi|377713044|gb|EHT37257.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1750]
gi|377714428|gb|EHT38629.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1769]
gi|377717721|gb|EHT41896.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1835]
gi|377722429|gb|EHT46555.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG547]
gi|377723611|gb|EHT47736.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1096]
gi|377725779|gb|EHT49892.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1150]
gi|377730585|gb|EHT54652.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1176]
gi|377730988|gb|EHT55046.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1213]
gi|377735202|gb|EHT59238.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1233]
gi|377738823|gb|EHT62832.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1612]
gi|377742883|gb|EHT66868.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1770]
gi|377744084|gb|EHT68062.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG290]
gi|377744890|gb|EHT68867.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG2018]
gi|377750632|gb|EHT74570.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1267]
gi|377752060|gb|EHT75984.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG149]
gi|377752884|gb|EHT76802.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIG1524]
gi|377758161|gb|EHT82049.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC340D]
gi|377761230|gb|EHT85106.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC341D]
gi|377763411|gb|EHT87267.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC345D]
gi|377764368|gb|EHT88221.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC348]
gi|377769573|gb|EHT93341.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC93]
gi|377770625|gb|EHT94386.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus CIGC128]
gi|379993900|gb|EIA15345.1| RpoD [Staphylococcus aureus subsp. aureus DR10]
gi|383363918|gb|EID41244.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus IS-M]
gi|383972959|gb|EID88980.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CO-23]
gi|384230555|gb|AFH69802.1| RpoD [Staphylococcus aureus subsp. aureus 71193]
gi|385196563|emb|CCG16192.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus HO
5096 0412]
gi|387717992|gb|EIK05987.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS2]
gi|387718286|gb|EIK06270.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS3a]
gi|387719489|gb|EIK07434.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS1]
gi|387724913|gb|EIK12544.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS4]
gi|387727172|gb|EIK14704.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS5]
gi|387730234|gb|EIK17641.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS6]
gi|387735302|gb|EIK22431.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS8]
gi|387736778|gb|EIK23866.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS7]
gi|387736941|gb|EIK24027.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS9]
gi|387744872|gb|EIK31636.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS10]
gi|387745038|gb|EIK31800.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS11a]
gi|387746631|gb|EIK33360.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus VRS11b]
gi|394331702|gb|EJE57785.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus str. Newbould 305]
gi|402348369|gb|EJU83361.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus CM05]
gi|404440401|gb|AFR73594.1| RNA polymerase sigma factor [Staphylococcus aureus 08BA02176]
gi|408423682|emb|CCJ11093.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
ST228]
gi|408425672|emb|CCJ13059.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
ST228]
gi|408427659|emb|CCJ15022.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
ST228]
gi|408429648|emb|CCJ26813.1| RNA polymerase sigma factor [Staphylococcus aureus subsp. aureus
ST228]
gi|408431635|emb|CCJ18950.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus ST228]
gi|408433629|emb|CCJ20914.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus ST228]
gi|408435621|emb|CCJ22881.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus ST228]
gi|408437605|emb|CCJ24848.1| RNA polymerase sigma factor rpoD [Staphylococcus aureus subsp.
aureus ST228]
gi|421956806|gb|EKU09135.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus CN79]
gi|436431107|gb|ELP28461.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus DSM 20231]
gi|436506198|gb|ELP42037.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21282]
gi|443405222|gb|ELS63830.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus subsp.
aureus 21236]
gi|445548579|gb|ELY16829.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus KT/314250]
gi|445563764|gb|ELY19921.1| RNA polymerase sigma factor RpoD [Staphylococcus aureus KT/Y21]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|309790033|ref|ZP_07684607.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG-6]
gi|308227888|gb|EFO81542.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG6]
Length = 358
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 108/322 (33%), Positives = 175/322 (54%), Gaps = 26/322 (8%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG----LSLDDHKLRLKERLGSSL 239
+ PE I++ ++ Y+ + LL+ E L+ +I+ G + LD ER +
Sbjct: 53 LEPEAIEDSIQIYLHEIGQVALLSAEEERDLAMQIRAGKEAQMQLD------TERFANG- 105
Query: 240 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 299
+R +L+ + AR +L+ +N+RLV+S+A++Y N DLVQ G IGL+R +EK
Sbjct: 106 -AARAQLELTVARGHEARRRLIQANLRLVVSVAKKYINSPMAFMDLVQEGNIGLMRAVEK 164
Query: 300 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTP 358
FD +KG + STY WWIRQ VSR++ E SR +RLP HL E L +R A +LE++ P
Sbjct: 165 FDHTKGNRFSTYATWWIRQAVSRSIAEQSRVIRLPVHLSESLVQMRRAIYKLEQQFEREP 224
Query: 359 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 418
+ IA + +S +KV+ +A + SL++ G GE +AD VE P
Sbjct: 225 TAQEIAHSMGLSLRKVKRLLQASAQPVSLEQPLNNEQEGRVGEV----LADENVE-TPM- 278
Query: 419 GVDDWALKDEVNKLIIVTLG---EREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 474
D A + ++ + L +RER+I++L YGL D + T E++ G++RER RQ
Sbjct: 279 ---DLATQKMFHQELYAALNDLPDRERKILQLRYGLFDGQRRTLEEVGMAFGITRERTRQ 335
Query: 475 VGLVALEKLKHAARKKKMEAML 496
+ A+ +L+ ++++A L
Sbjct: 336 IEAEAMRRLRQPQVGQRLQAYL 357
>gi|392972231|ref|ZP_10337623.1| RNA polymerase sigma factor RpoD [Staphylococcus equorum subsp.
equorum Mu2]
gi|392509944|emb|CCI60926.1| RNA polymerase sigma factor RpoD [Staphylococcus equorum subsp.
equorum Mu2]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|424844271|ref|ZP_18268882.1| RNA polymerase sigma factor, sigma-70 family [Jonquetella anthropi
DSM 22815]
gi|363985709|gb|EHM12539.1| RNA polymerase sigma factor, sigma-70 family [Jonquetella anthropi
DSM 22815]
Length = 805
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 150/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++++ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD +GFK STY WW
Sbjct: 568 AKDEIINANLRLVVSIAKKYIGRGMQFLDLIQEGNLGLIRAVEKFDYRRGFKFSTYATWW 627
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + ++R ++ +++ G PS + IA + + ++V
Sbjct: 628 IRQAITRAIADQARTIRIPVHMVETINKMVRISRQLVQKLGREPSDEEIAAEMKIEPERV 687
Query: 375 RNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 430
E I ++ + P SL GE S + D +R +P D L++++
Sbjct: 688 ----EEIKRISQM-----PVSLETPIGEEEDSQLGDFIEDRSLPSPEDVAADNLLQEQIE 738
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
+++ L +RERE++R +GL D T E++ +R G++RER+RQ+ AL KL+H +R
Sbjct: 739 EMLNA-LSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIRQIEAKALRKLRHPSRS 797
Query: 490 KKMEAML 496
KK+ L
Sbjct: 798 KKLRDFL 804
>gi|291522892|emb|CBK81185.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7]
Length = 366
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 169/314 (53%), Gaps = 47/314 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
+++ ++ Y+K + S +LL+ E V LSK+ + G D K
Sbjct: 92 LEDPVRMYLKEIGSVKLLSPEEEVELSKRAEAG----DQK-------------------- 127
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++++ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 128 -------AKDRIIEANLRLVVSIAKKYVGRGIPFLDLIQEGNMGLIKAVEKFDYAKGFKF 180
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++R + + +T+R+P H+ E + +R ++ L+E G P+ + IAE L
Sbjct: 181 STYATWWIRQSITRGIADKGKTIRVPVHMVETINKTLRMSRNLLQELGREPTSEEIAERL 240
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWA 424
+++KV A E S+D GE S + D + N P D
Sbjct: 241 GTTKQKVEEALEISRDPVSMDSPI--------GEEEDSSLGDFIEDENMLSPSDSADYQM 292
Query: 425 LKDE-VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
LK E VN L TL +RER++I L +GL D + T E++ K ++RER+RQ+ AL K
Sbjct: 293 LKKELVNAL--DTLTDRERKVIELRFGLIDGQARTLEEVGKEFKVTRERIRQIEAKALRK 350
Query: 483 LKHAARKKKMEAML 496
L+H +R +K++ L
Sbjct: 351 LRHPSRSRKLKDFL 364
>gi|769798|emb|CAA60113.1| sigma 42 [Enterococcus faecalis]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/313 (32%), Positives = 170/313 (54%), Gaps = 45/313 (14%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQS 248
I + ++ Y+K + +LLT AE V L+ KI+ G D +
Sbjct: 95 INDPVRMYLKEIGRVQLLTAAEEVELALKIEEG----DQE-------------------- 130
Query: 249 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 308
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK
Sbjct: 131 -------AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKF 183
Query: 309 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 367
STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +
Sbjct: 184 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRMQRNLLQDLGREPTPEEIGAEM 243
Query: 368 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWA 424
++ +KVR ++ + +E SL GE S++ D ++ +P
Sbjct: 244 DLPTEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYEL 295
Query: 425 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 483
LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL
Sbjct: 296 LKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKL 354
Query: 484 KHAARKKKMEAML 496
+H +R K+++ L
Sbjct: 355 RHPSRSKQLKDFL 367
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 176/308 (57%), Gaps = 20/308 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS-RPELQSI 249
+ ++ Y+K + LL E V L+K+I+ GL L ER G+ L + R ++ I
Sbjct: 272 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER-GTKLPTAQRRDMMWI 330
Query: 250 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 309
+ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +KG+K S
Sbjct: 331 CRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFS 390
Query: 310 TYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTPSVDRIAEY 366
TY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P+ + +A+
Sbjct: 391 TYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREPTPEELAKE 448
Query: 367 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA-- 424
++++ +KV + + SLD+ G+ S + D ++ VD +
Sbjct: 449 MDITPEKVLEIQQYAREPISLDQTI--------GDEGDSQLGDFIEDSEAVVAVDAVSFT 500
Query: 425 -LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 501 LLQDQLQS-VLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 559
Query: 483 LKHAARKK 490
L+H +R +
Sbjct: 560 LRHPSRSQ 567
>gi|385784294|ref|YP_005760467.1| RNA polymerase sigma factor [Staphylococcus lugdunensis N920143]
gi|418413970|ref|ZP_12987186.1| RNA polymerase sigma factor rpoD [Staphylococcus lugdunensis
ACS-027-V-Sch2]
gi|339894550|emb|CCB53832.1| RNA polymerase sigma factor [Staphylococcus lugdunensis N920143]
gi|410877608|gb|EKS25500.1| RNA polymerase sigma factor rpoD [Staphylococcus lugdunensis
ACS-027-V-Sch2]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|338536428|ref|YP_004669762.1| RNA polymerase sigma factor RpoD [Myxococcus fulvus HW-1]
gi|337262524|gb|AEI68684.1| RNA polymerase sigma factor RpoD [Myxococcus fulvus HW-1]
Length = 708
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 590 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 640
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 641 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 699
Query: 490 KKMEAML 496
K++ + +
Sbjct: 700 KRLRSFV 706
>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 = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|407275570|ref|ZP_11104040.1| RNA polymerase sigma factor SigB [Rhodococcus sp. P14]
gi|452960741|gb|EME66056.1| RNA polymerase sigma factor SigB [Rhodococcus ruber BKS 20-38]
Length = 320
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 109/320 (34%), Positives = 167/320 (52%), Gaps = 50/320 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL+ A+ V L+K+I+ GL H L K+RL ++ + +L ++ +
Sbjct: 27 YLNGIGRTALLSAADEVELAKRIEAGLYAQ-HLLETKKRLTAA---KKRDLAILVRDGQA 82
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 83 ARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 142
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE--------------EKGVTPSVD 361
IRQ ++R + + SRT+RLP HL E++ + K L E G+ V+
Sbjct: 143 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELSAESGI--PVE 200
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+I + L+ S+ V N EA F D EA + N + HS +
Sbjct: 201 KIGDLLDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSAENAVIAGLLHSDV-------- 252
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ
Sbjct: 253 ---------------RSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQ 297
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ + KL+ R +++ A
Sbjct: 298 IEREVMGKLREGDRAERLRA 317
>gi|421059039|ref|ZP_15521671.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
gi|421067092|ref|ZP_15528606.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|421072461|ref|ZP_15533570.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392445661|gb|EIW22972.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392450830|gb|EIW27839.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|392459720|gb|EIW36105.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
Length = 377
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 102/295 (34%), Positives = 168/295 (56%), Gaps = 32/295 (10%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLA----------REKLVMSNVR 266
I G+S+DD ++ LKE I R L + E LA + +L +N+R
Sbjct: 98 IPEGISIDDPVRMYLKE-------IGRVPLLTADEEIKLAQRMEEGDEEAKRRLAEANLR 150
Query: 267 LVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVE 326
LV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ ++RA+ +
Sbjct: 151 LVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIAD 210
Query: 327 NSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVF 385
+RT+R+P H+ E + LIR ++ L+E G P + IA+ +++S ++VR ++
Sbjct: 211 QARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVR-------EIM 263
Query: 386 SLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
+ +E SL GE S++ D ++ P LK+++ + ++ TL RE
Sbjct: 264 KIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VLETLTPREE 321
Query: 443 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 322 KVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 376
>gi|332711345|ref|ZP_08431277.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332349894|gb|EGJ29502.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332651122|gb|AEE81162.1| putative RNA polymerase sigma factor [Moorea producens 3L]
Length = 319
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 100/307 (32%), Positives = 172/307 (56%), Gaps = 26/307 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILME 252
++ Y+K + LLTH + + KK+K +L + K L ++LG S S L +
Sbjct: 11 VRTYLKEIGRVPLLTHEQEISYGKKVKQLTTLKEVKESLVQQLGREPTFSEWATASCLTD 70
Query: 253 CSL---------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 303
L A+ K+V +N+RLV+++A++Y ++ DL+Q G IGL RG+EKFD +
Sbjct: 71 SQLKSSIAVGESAKRKMVEANLRLVVAVAKKYIKRNLELLDLIQEGTIGLQRGVEKFDPT 130
Query: 304 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 362
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRTATISE 190
Query: 363 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 422
+A LN++ ++R E + SL+ G+ + + + + P G +D
Sbjct: 191 LAIELNLTPDQLREYFEQARQPLSLELRV--------GDNKDTELVELLEDTGP--GPED 240
Query: 423 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 477
+ ++ ++ K + L ++R+++RL YGL + E +T I + + +SRERVRQ+
Sbjct: 241 FVNQSLMQLDLEKF-MDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIER 299
Query: 478 VALEKLK 484
A+ KL+
Sbjct: 300 EAIAKLR 306
>gi|222151460|ref|YP_002560616.1| RNA polymerase sigma factor RpoD [Macrococcus caseolyticus
JCSC5402]
gi|222120585|dbj|BAH17920.1| RNA polymerase sigma factor SigA [Macrococcus caseolyticus
JCSC5402]
Length = 366
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 129 AKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFTKGFKFSTYATWW 188
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 189 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPSPEEIGEEMDLPAEKV 248
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + + D A LK+++
Sbjct: 249 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDAQSPADHAAYELLKEQLED 300
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 301 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 359
Query: 491 KMEAML 496
+++ +
Sbjct: 360 RLKDFM 365
>gi|218438948|ref|YP_002377277.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218171676|gb|ACK70409.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 376
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 171/314 (54%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG---------SSLR 240
++ ++ Y++ + LL E + L++KI L L+ + +L+ LG +
Sbjct: 65 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRSLGRYPSDKEWAEQVG 124
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 125 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 184
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 185 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 244
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 245 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 294
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 295 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 353
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 354 IEAKALRKLRHPNR 367
>gi|410460493|ref|ZP_11314171.1| RNA polymerase sigma factor RpoD [Bacillus azotoformans LMG 9581]
gi|409927108|gb|EKN64254.1| RNA polymerase sigma factor RpoD [Bacillus azotoformans LMG 9581]
Length = 380
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 143 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 202
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 262
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 430
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 263 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEATSPSDAAAYELLKEQLE 313
Query: 431 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 314 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 372
Query: 490 KKMEAML 496
K+++ L
Sbjct: 373 KRLKDFL 379
>gi|427734591|ref|YP_007054135.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427369632|gb|AFY53588.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 389
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 175/314 (55%), Gaps = 26/314 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERL---------GSSLR 240
++ ++ Y++ + LL E + L++KI L L+ RL ++L +++
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVGDRLVQQLERQPQESEWAEAVQ 137
Query: 241 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 LPLQKFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 359
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 415
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 474
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKSLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 475 VGLVALEKLKHAAR 488
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>gi|403046444|ref|ZP_10901913.1| RNA polymerase sigma factor RpoD [Staphylococcus sp. OJ82]
gi|402763140|gb|EJX17233.1| RNA polymerase sigma factor RpoD [Staphylococcus sp. OJ82]
Length = 368
Score = 155 bits (392), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|443673296|ref|ZP_21138364.1| RNA polymerase sigma factor [Rhodococcus sp. AW25M09]
gi|443414111|emb|CCQ16702.1| RNA polymerase sigma factor [Rhodococcus sp. AW25M09]
Length = 323
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 109/305 (35%), Positives = 171/305 (56%), Gaps = 24/305 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRIS---RPELQSILME 252
Y+ G+ LLT AE V L+K+I+ GL K+ L ++ R+S + L I+ +
Sbjct: 30 YLNGIGRTALLTAAEEVDLAKRIEAGLYA-------KQVLENTKRLSAVKKRNLAIIVRD 82
Query: 253 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 312
S AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY
Sbjct: 83 GSSARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYA 142
Query: 313 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQ 371
WWIRQ ++R + + SRT+RLP HL E++ + K L ++ G + D ++ ++
Sbjct: 143 TWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELSSESGIAV 202
Query: 372 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDDWALKDE 428
+K+ + + SLD G+ +I D+ EN G+ L +
Sbjct: 203 EKIADLLDHSRDPVSLDMPVGSDEEAPLGD----FIEDSEATSAENAVIAGL----LHSD 254
Query: 429 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 487
V ++++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ + KL+
Sbjct: 255 V-RVVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKLRQGD 313
Query: 488 RKKKM 492
R +K+
Sbjct: 314 RAEKL 318
>gi|358061045|ref|ZP_09147729.1| RNA polymerase sigma factor RpoD [Staphylococcus simiae CCM 7213]
gi|357256498|gb|EHJ06862.1| RNA polymerase sigma factor RpoD [Staphylococcus simiae CCM 7213]
Length = 368
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 255 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 314
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 315 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 373
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 374 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 429
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 430 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 488
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 489 KKKMEAML 496
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 468 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 527
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 528 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 587
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 588 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 638
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 639 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 697
Query: 490 KKMEAML 496
K++ + +
Sbjct: 698 KRLRSFV 704
>gi|427727607|ref|YP_007073844.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427363526|gb|AFY46247.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 416
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 93/260 (35%), Positives = 156/260 (60%), Gaps = 9/260 (3%)
Query: 232 KERLGSSLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 291
K R +++ EL+ I A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +
Sbjct: 153 KRRWAEIAKMTVEELEQIQSNGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTL 212
Query: 292 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 351
GL R +EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++
Sbjct: 213 GLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKI 272
Query: 352 -EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 410
+EKG TP+++ +A L M+ +VR + + SL+ + + GE + +
Sbjct: 273 AQEKGRTPTLEDLAIELEMTPSQVREVLLRVPRSVSLETKVGKDKDTELGE----LLETD 328
Query: 411 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 469
V P + +L+ ++ L + L RER++I + +GL D + +I + + LSR
Sbjct: 329 GV--TPEEMLMRESLQRDLQHL-LADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSR 385
Query: 470 ERVRQVGLVALEKLKHAARK 489
ERVRQ+ AL+KL+ R+
Sbjct: 386 ERVRQIESKALQKLRQPKRR 405
>gi|406993818|gb|EKE12911.1| hypothetical protein ACD_13C00122G0001 [uncultured bacterium]
Length = 359
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 94/246 (38%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A++KL SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D KGFK STY WW
Sbjct: 122 AKDKLTESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRKGFKFSTYATWW 181
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + I R ++ ++E G P+ + I E L M ++
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKIYRTSRRLMQELGREPTPEEIGEELEMEGDRI 241
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++F + +E SL GE S++ D + N VD + LKD + +
Sbjct: 242 R-------EIFKIAQET-TSLEAPVGEDQESFLGDFIPDENTLSPVDQASKQLLKDHLEE 293
Query: 432 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL ERE ++++L +GL+ + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLGTLSEREAKVLKLRFGLEGSKAMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 491 KMEAML 496
K++ L
Sbjct: 353 KLQDYL 358
>gi|343924623|ref|ZP_08764167.1| RNA polymerase sigma factor SigB [Gordonia alkanivorans NBRC 16433]
gi|404258486|ref|ZP_10961805.1| RNA polymerase sigma factor SigB [Gordonia namibiensis NBRC 108229]
gi|409390116|ref|ZP_11241887.1| RNA polymerase sigma factor SigB [Gordonia rubripertincta NBRC
101908]
gi|343765423|dbj|GAA11093.1| RNA polymerase sigma factor SigB [Gordonia alkanivorans NBRC 16433]
gi|403199943|dbj|GAB85121.1| RNA polymerase sigma factor SigB [Gordonia rubripertincta NBRC
101908]
gi|403403000|dbj|GAC00215.1| RNA polymerase sigma factor SigB [Gordonia namibiensis NBRC 108229]
Length = 338
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 108/320 (33%), Positives = 166/320 (51%), Gaps = 50/320 (15%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLRISRPELQSILMECSL 255
Y+ G+ LL + V L+K+I+ GL H L K+RL ++ + +L +I+ E
Sbjct: 45 YLNGIGRTALLNAEQEVELAKQIEAGLYAK-HVLATKKRLSAT---KKRDLATIVREGEA 100
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 101 ARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWW 160
Query: 316 IRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLEEKGVTPSVD 361
IRQ ++R + + SRT+RLP H LH++LG + E G+ +
Sbjct: 161 IRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDEELANESGI--PAE 218
Query: 362 RIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 415
+IA+ L+ S+ V + EA F D EA + N + HS I
Sbjct: 219 KIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEATSAENAVIAGLLHSDI-------- 270
Query: 416 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 474
+ ++ TL ERE+++IR+ YGLD + T + I + GLSRERVRQ
Sbjct: 271 ---------------RAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQ 315
Query: 475 VGLVALEKLKHAARKKKMEA 494
+ + KL+ R +++ A
Sbjct: 316 IEREVMGKLRAGDRAERLRA 335
>gi|405375954|ref|ZP_11029969.1| RNA polymerase sigma factor RpoD [Chondromyces apiculatus DSM 436]
gi|397085768|gb|EJJ16948.1| RNA polymerase sigma factor RpoD [Myxococcus sp. (contaminant ex
DSM 436)]
Length = 707
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 469 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 528
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 529 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 588
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 430
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 589 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 639
Query: 431 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 489
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 640 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 698
Query: 490 KKMEAML 496
K++ + +
Sbjct: 699 KRLRSFV 705
>gi|392961840|ref|ZP_10327294.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
gi|421055753|ref|ZP_15518715.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392439518|gb|EIW17229.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392453407|gb|EIW30288.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
Length = 371
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 102/295 (34%), Positives = 168/295 (56%), Gaps = 32/295 (10%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPELQSILMECSLA----------REKLVMSNVR 266
I G+S+DD ++ LKE I R L + E LA + +L +N+R
Sbjct: 92 IPEGISIDDPVRMYLKE-------IGRVPLLTADEEIKLAQRMEEGDEEAKRRLAEANLR 144
Query: 267 LVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVE 326
LV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ ++RA+ +
Sbjct: 145 LVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIAD 204
Query: 327 NSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVF 385
+RT+R+P H+ E + LIR ++ L+E G P + IA+ +++S ++VR ++
Sbjct: 205 QARTIRIPVHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVR-------EIM 257
Query: 386 SLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERER 442
+ +E SL GE S++ D ++ P LK+++ + ++ TL RE
Sbjct: 258 KIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE-VLETLTPREE 315
Query: 443 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
+++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 316 KVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 370
>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|355627292|ref|ZP_09049193.1| RNA polymerase sigma factor rpoD [Clostridium sp. 7_3_54FAA]
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]
gi|354820354|gb|EHF04771.1| RNA polymerase sigma factor rpoD [Clostridium sp. 7_3_54FAA]
Length = 372
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 101/287 (35%), Positives = 172/287 (59%), Gaps = 16/287 (5%)
Query: 218 IKTGLSLDDH-KLRLKERLGSSLRISRPE----LQSILMECSLAREKLVMSNVRLVMSIA 272
I G+++DD ++ LKE +G +S E + + M A+++L +N+RLV+SIA
Sbjct: 93 IPDGVNIDDPVRMYLKE-IGKVPLLSPEEEIELAKQMEMGNEYAKKRLAEANLRLVVSIA 151
Query: 273 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 332
+RY G DL+Q G +GL++ +EK+D SKGFK STY WWIRQ ++R++ + +RT+R
Sbjct: 152 KRYVGRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWWIRQAITRSIADQARTIR 211
Query: 333 LPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREA 391
+P H+ E + LIR ++ L+E G P + +AE ++M ++VR I K+ S D +
Sbjct: 212 IPVHMVETINRLIRTSRQLLQELGREPHPEEVAERMDMPVERVRE----IMKI-SQDPVS 266
Query: 392 FPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 450
+ G ++H +I D+ V+ P L +++ + ++ TL +RE++++RL +G
Sbjct: 267 LETPIGEEEDSHLGDFIQDDHVQ-VPLDAATFTLLHEQLME-VLDTLTDREQKVLRLRFG 324
Query: 451 LDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
LD T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 325 LDDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 371
>gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma
akashiwo]
Length = 404
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 170/320 (53%), Gaps = 15/320 (4%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGSSLR----ISRPEL 246
+ +K YVK + + ++LT E + L+++IK G+ ++ + L++ LG ++ L
Sbjct: 73 DTMKEYVKDLRTVDMLTAQEEILLTRQIKRGMEIEKALVTLEKTLGRKPTEEEWVNFVGL 132
Query: 247 QSI------LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 300
+SI L S ++ ++ +N+RLV+S A+ Y G DLVQ G GL + EKF
Sbjct: 133 KSIDDIRKNLKRASKSKSAIINANLRLVVSTAKAYQYRGVSFQDLVQEGTCGLHKATEKF 192
Query: 301 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 359
D KGF+ STY WWI+QG+ RA+ + SR +RLP H+H+ L IR AK E P+
Sbjct: 193 DPRKGFRFSTYATWWIKQGIMRAVTDQSRVVRLPVHVHDALFHIRRAKANFWTEHLREPT 252
Query: 360 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 417
+ +AE ++ +K+ KV S+D+ E I+D N P
Sbjct: 253 LAELAEATGLTPQKIVFYDTVKDKVSSIDKTVGIGTKTNSMEKSQIAISDMCKDSRNKPE 312
Query: 418 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 476
+L+ ++++L I TL RE++++R+ YGLD E T E+I ++RERVRQ+
Sbjct: 313 ETAQVESLRQDISRL-INTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQIE 371
Query: 477 LVALEKLKHAARKKKMEAML 496
AL KL+ R +++ L
Sbjct: 372 ARALHKLRQPYRNHRLKGQL 391
>gi|429205294|ref|ZP_19196571.1| RNA polymerase sigma factor RpoD [Lactobacillus saerimneri 30a]
gi|428146366|gb|EKW98605.1| RNA polymerase sigma factor RpoD [Lactobacillus saerimneri 30a]
Length = 371
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 146/246 (59%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 135 AKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 194
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P + I +NM +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPVPEEIGAEMNMPTEKV 254
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 431
R ++ + +E SL GE S++ D + + D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEN 306
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K
Sbjct: 307 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSK 365
Query: 491 KMEAML 496
+++ L
Sbjct: 366 QLKDFL 371
>gi|386867263|ref|YP_006280257.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp.
animalis ATCC 25527]
gi|385701346|gb|AFI63294.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp.
animalis ATCC 25527]
Length = 488
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 109/336 (32%), Positives = 183/336 (54%), Gaps = 21/336 (6%)
Query: 168 NKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
++++L G R +++ + +K Y+K + LL + V LS++I+ GL +
Sbjct: 165 DEALLANPGVNPKRRVVTTGATADPVKDYLKQIGRVSLLNAEQEVDLSERIEAGL----Y 220
Query: 228 KLRLKERLGSSLRISRP-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 286
L + G ++ R EL+ + A++ L+ +N+RLV+S+A+RY G DL+
Sbjct: 221 AQHLLDTEGDTMEFRRKRELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLI 280
Query: 287 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 345
Q G +GL+R +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R
Sbjct: 281 QEGNLGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSR 340
Query: 346 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 405
+ L++ G P+ D +A L+M +KV+ +V RE SL+ GE S
Sbjct: 341 VQRQMLQDLGREPTPDELARELDMPVEKVQ-------EVQKYGREPI-SLHTPLGEDGDS 392
Query: 406 YIADNRVENN----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWED 460
D +E+ P V ++L E + ++ TL RE +I++ YGL D + T +D
Sbjct: 393 EFGD-LIEDTDAIAPSEAV-AFSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDD 450
Query: 461 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 496
I + G++RER+RQ+ + KL+H +R + + L
Sbjct: 451 IGRVYGVTRERIRQIESKTMSKLRHPSRSQTLRDFL 486
>gi|225575013|ref|ZP_03783623.1| hypothetical protein RUMHYD_03093 [Blautia hydrogenotrophica DSM
10507]
gi|225037764|gb|EEG48010.1| RNA polymerase sigma factor RpoD [Blautia hydrogenotrophica DSM
10507]
Length = 374
Score = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 256 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 196
Query: 316 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 374
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ + MS +V
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMEMSVDRV 256
Query: 375 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 431
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 257 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 308
Query: 432 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 490
++ TL +RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 309 -VLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 367
Query: 491 KMEAML 496
K++ L
Sbjct: 368 KLKDYL 373
>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 = 155 bits (392), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 89/254 (35%), Positives = 153/254 (60%), Gaps = 9/254 (3%)
Query: 245 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 304
EL + E A++ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD ++
Sbjct: 154 ELDQVQTEGIKAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTR 213
Query: 305 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 363
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG ++D I
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRIATIDDI 273
Query: 364 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 423
A L M+ +VR + + SL+ + + GE + A +P +
Sbjct: 274 AAELEMTPAQVREVLLKVPRSVSLETKVGSDKDTELGELLETEEA------SPEDQLMRE 327
Query: 424 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 482
+L ++ +L + L +RER++I++ YGL + + +I + + LSRERVRQ+ AL+K
Sbjct: 328 SLHRDLQQL-LADLSDRERDVIQMRYGLGNGHTYSLAEIGRELELSRERVRQIEAKALQK 386
Query: 483 LKHAARKKKMEAML 496
L+ R+ ++ L
Sbjct: 387 LRQPKRRNRVRDYL 400
Database: nr
Posted date: Mar 3, 2013 10:45 PM
Number of letters in database: 999,999,864
Number of sequences in database: 2,912,245
Database: /local_scratch/syshi//blastdatabase/nr.01
Posted date: Mar 3, 2013 10:52 PM
Number of letters in database: 999,999,666
Number of sequences in database: 2,912,720
Database: /local_scratch/syshi//blastdatabase/nr.02
Posted date: Mar 3, 2013 10:58 PM
Number of letters in database: 999,999,938
Number of sequences in database: 3,014,250
Database: /local_scratch/syshi//blastdatabase/nr.03
Posted date: Mar 3, 2013 11:03 PM
Number of letters in database: 999,999,780
Number of sequences in database: 2,805,020
Database: /local_scratch/syshi//blastdatabase/nr.04
Posted date: Mar 3, 2013 11:08 PM
Number of letters in database: 999,999,551
Number of sequences in database: 2,816,253
Database: /local_scratch/syshi//blastdatabase/nr.05
Posted date: Mar 3, 2013 11:13 PM
Number of letters in database: 999,999,897
Number of sequences in database: 2,981,387
Database: /local_scratch/syshi//blastdatabase/nr.06
Posted date: Mar 3, 2013 11:18 PM
Number of letters in database: 999,999,649
Number of sequences in database: 2,911,476
Database: /local_scratch/syshi//blastdatabase/nr.07
Posted date: Mar 3, 2013 11:24 PM
Number of letters in database: 999,999,452
Number of sequences in database: 2,920,260
Database: /local_scratch/syshi//blastdatabase/nr.08
Posted date: Mar 3, 2013 11:25 PM
Number of letters in database: 64,230,274
Number of sequences in database: 189,558
Lambda K H
0.315 0.130 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,233,275,926
Number of Sequences: 23463169
Number of extensions: 293653121
Number of successful extensions: 960619
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 10493
Number of HSP's successfully gapped in prelim test: 1808
Number of HSP's that attempted gapping in prelim test: 930809
Number of HSP's gapped (non-prelim): 15570
length of query: 499
length of database: 8,064,228,071
effective HSP length: 147
effective length of query: 352
effective length of database: 8,910,109,524
effective search space: 3136358552448
effective search space used: 3136358552448
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 79 (35.0 bits)