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= 010521
(508 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 = 846 bits (2185), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 417/508 (82%), Positives = 457/508 (89%), Gaps = 1/508 (0%)
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 RSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPS 240
+S +SPEL+QNRLKGYVKGVVSEELL+HAEVVRLS+ IK GLSL+DHK RLKERLGC+PS
Sbjct: 181 KSAVSPELLQNRLKGYVKGVVSEELLSHAEVVRLSRIIKAGLSLEDHKSRLKERLGCDPS 240
Query: 241 MEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 300
EQ+A SL+ISR ELQS + CSLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGGLI
Sbjct: 241 DEQVATSLKISRAELQSKSIACSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGLI 300
Query: 301 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL 360
GLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK+RL
Sbjct: 301 GLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKIRL 360
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
EEKGVTPS+DRIAE LN+SQKKVRNATEA+ KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 361 EEKGVTPSIDRIAESLNISQKKVRNATEAVSKVFSLDREAFPSLNGLPGETHHSYIADNC 420
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRER 480
+ENNPWHGVDDWALKDEVNKLI +TL ERE+EIIRLYYGLD E LTWEDISKRIGLSRER
Sbjct: 421 LENNPWHGVDDWALKDEVNKLINLTLQEREQEIIRLYYGLDNESLTWEDISKRIGLSRER 480
Query: 481 VRQVGLVALEKLKHAARKKKMEAMLVKH 508
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 = 823 bits (2126), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 404/509 (79%), Positives = 450/509 (88%), Gaps = 1/509 (0%)
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 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP 239
LRS+ SP+L+QNRLKGYVKGVVS+E+L H EVVRLS+ I+ GLS +DHK RLKERLGCEP
Sbjct: 181 LRSVSSPDLLQNRLKGYVKGVVSDEVLPHTEVVRLSRIIRAGLSFEDHKSRLKERLGCEP 240
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S EQ+A SLRISR +LQS L++CSLAREKL MSNVRLVMSIAQ+YDNMGA+MADLVQGGL
Sbjct: 241 SDEQIADSLRISRADLQSKLIQCSLAREKLAMSNVRLVMSIAQKYDNMGAEMADLVQGGL 300
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV+NSRTLRLPNHLHERLGLIRNAK+R
Sbjct: 301 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVDNSRTLRLPNHLHERLGLIRNAKIR 360
Query: 360 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 419
LEEKGVTPS+DRIAE LNMSQ+KVRNATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 361 LEEKGVTPSIDRIAESLNMSQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 420
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 479
R ENNPWHGVD+WALK+EVNKLI TL ERE+EIIRLY+GLD+ECLTWEDISKR+GLSRE
Sbjct: 421 RPENNPWHGVDEWALKEEVNKLIDSTLQEREKEIIRLYHGLDQECLTWEDISKRMGLSRE 480
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLVKH 508
RVRQVGLVALEKLKHAARK+ EAMLVKH
Sbjct: 481 RVRQVGLVALEKLKHAARKRNTEAMLVKH 509
>gi|356543070|ref|XP_003539986.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 503
Score = 794 bits (2051), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 392/510 (76%), Positives = 451/510 (88%), Gaps = 10/510 (1%)
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 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE 238
QL+S ISPEL+Q+RLKGYVKG+VSEELL+HAEVV LS+KIK GLSL++HK RLKE+LGCE
Sbjct: 174 QLKSKISPELLQHRLKGYVKGLVSEELLSHAEVVNLSEKIKVGLSLEEHKSRLKEKLGCE 233
Query: 239 PSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 298
PS +Q+A SL+ISR EL++ ++ECSLAREKL MSNVRLVMSIAQ+YDN+GA+M DLVQGG
Sbjct: 234 PSDDQMATSLKISRTELRARMIECSLAREKLAMSNVRLVMSIAQKYDNLGAEMGDLVQGG 293
Query: 299 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 358
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK
Sbjct: 294 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPAHLHERLSLIRNAKF 353
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
RLEE+G+TP++DRIA+YLNMSQKKVRNATEAI K+ SLDREAFPSLNGL GETHHSYIAD
Sbjct: 354 RLEERGITPTIDRIAKYLNMSQKKVRNATEAISKIISLDREAFPSLNGLQGETHHSYIAD 413
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 478
NRVEN PW+GVD+WALKDEVN+LI VTL EREREIIRLYYGL+KECLTWEDISKRIGLSR
Sbjct: 414 NRVENIPWNGVDEWALKDEVNRLINVTLVEREREIIRLYYGLEKECLTWEDISKRIGLSR 473
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
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 = 788 bits (2034), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 389/509 (76%), Positives = 445/509 (87%), Gaps = 2/509 (0%)
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 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP 239
LR ISPEL+QNRLKGYVKG++SEELL+HAEVVRLSKKIK GL+L++ K RLK+RLGCEP
Sbjct: 180 LRPTISPELLQNRLKGYVKGLLSEELLSHAEVVRLSKKIKVGLTLEERKTRLKQRLGCEP 239
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +QLA SL+ISR EL+S +ME SLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGGL
Sbjct: 240 SEDQLAISLKISRAELRSRMMESSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGGL 299
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERLGLIRNAK++
Sbjct: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPTHLHERLGLIRNAKVK 359
Query: 360 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 419
L+EKG+TPS+DRIAE LNMS+KKV+NATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 360 LQEKGITPSLDRIAESLNMSKKKVQNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 419
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 479
+ENNPWHG D W LK EVN+LI +TLG+REREIIRLY+GLD ECLTWE+ISKRIGLSRE
Sbjct: 420 CLENNPWHGTDTWILKVEVNQLINMTLGDREREIIRLYHGLDNECLTWEEISKRIGLSRE 479
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLVKH 508
RVRQVGLVALEKLK AA+ +KMEAML+KH
Sbjct: 480 RVRQVGLVALEKLKKAAKTRKMEAMLLKH 508
>gi|356531599|ref|XP_003534364.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 503
Score = 787 bits (2032), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 390/510 (76%), Positives = 448/510 (87%), Gaps = 10/510 (1%)
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 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE 238
QL+S ISPEL+Q+RLKGYVKG+VSEELL+HAEVV LS++IK GLSL++HK RLKERLGCE
Sbjct: 174 QLKSKISPELLQHRLKGYVKGIVSEELLSHAEVVNLSERIKVGLSLEEHKSRLKERLGCE 233
Query: 239 PSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 298
PS +Q+A SL+ISR EL++ ++EC+LAREKL MSNVRLVMSIAQ+YDN+GA+M DLVQGG
Sbjct: 234 PSDDQMAISLKISRTELRARMIECTLAREKLAMSNVRLVMSIAQKYDNLGAEMGDLVQGG 293
Query: 299 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 358
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK
Sbjct: 294 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPAHLHERLSLIRNAKF 353
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
RLEE+G+TP++DRIA+YLNMSQKKVRNATEAI K SLDREAFPSLNG+ GETHHSYIAD
Sbjct: 354 RLEERGITPTIDRIAKYLNMSQKKVRNATEAISKTISLDREAFPSLNGIQGETHHSYIAD 413
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 478
+RVEN PW+GVD+WALKDEVNKLI VTL EREREIIRLYYGLDKE LTWEDISKRIGLSR
Sbjct: 414 DRVENIPWNGVDEWALKDEVNKLINVTLVEREREIIRLYYGLDKEGLTWEDISKRIGLSR 473
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
ERVRQVGLVALEKLKHAARK++MEAML+KH
Sbjct: 474 ERVRQVGLVALEKLKHAARKRQMEAMLLKH 503
>gi|224124068|ref|XP_002319237.1| predicted protein [Populus trichocarpa]
gi|222857613|gb|EEE95160.1| predicted protein [Populus trichocarpa]
Length = 499
Score = 767 bits (1980), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 394/509 (77%), Positives = 436/509 (85%), Gaps = 11/509 (2%)
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---------NQNQSKF 171
Query: 180 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP 239
+ S ISP L+ NRLKGYVKGVVS+E+L H EVVRLS+ I+ GLSL+DHK LKERLGCEP
Sbjct: 172 M-SDISPGLLLNRLKGYVKGVVSDEVLPHTEVVRLSRIIRAGLSLEDHKSSLKERLGCEP 230
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S EQLA SLRISR +LQS L++CSLAREKL MSNVRLVMSIAQ+ DNMGA+MADLVQ GL
Sbjct: 231 SDEQLADSLRISRADLQSQLIQCSLAREKLAMSNVRLVMSIAQKNDNMGAEMADLVQAGL 290
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN RTLRLPNHLHERLGLIRNAK+R
Sbjct: 291 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENPRTLRLPNHLHERLGLIRNAKIR 350
Query: 360 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 419
LEEKGVTPS+DRIAE LNMSQ+KVRNATEAI KVFSLDREAFPSLNGLPGETHHSYIADN
Sbjct: 351 LEEKGVTPSIDRIAESLNMSQRKVRNATEAISKVFSLDREAFPSLNGLPGETHHSYIADN 410
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 479
R+ENNPWHGVD+WALK+EVNKLI L EREREIIRLY+GLDKECLTWEDISKR+GLSRE
Sbjct: 411 RLENNPWHGVDEWALKEEVNKLIDSALQEREREIIRLYHGLDKECLTWEDISKRMGLSRE 470
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLVKH 508
RVRQVGLVALEKLKHAARK K+EAMLVKH
Sbjct: 471 RVRQVGLVALEKLKHAARKGKLEAMLVKH 499
>gi|2565297|gb|AAB81958.1| RNA polymerase sigma subunit 1 [Arabidopsis thaliana]
Length = 502
Score = 754 bits (1946), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 379/519 (73%), Positives = 434/519 (83%), Gaps = 29/519 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
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 = 752 bits (1942), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 378/519 (72%), Positives = 434/519 (83%), Gaps = 29/519 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|11762220|gb|AAG40388.1|AF325036_1 At1g64860 [Arabidopsis thaliana]
Length = 502
Score = 750 bits (1937), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 377/519 (72%), Positives = 434/519 (83%), Gaps = 29/519 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRY+N+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYNNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|2398851|dbj|BAA22214.1| plastid RNA polymerase sigma-subunit [Arabidopsis thaliana]
Length = 502
Score = 749 bits (1934), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 377/519 (72%), Positives = 433/519 (83%), Gaps = 29/519 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>gi|2385344|emb|CAA74896.1| sigma factorB [Arabidopsis thaliana]
Length = 500
Score = 748 bits (1932), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 376/517 (72%), Positives = 432/517 (83%), Gaps = 29/517 (5%)
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 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
K+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA+M
Sbjct: 224 KDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAEM 283
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERLG
Sbjct: 284 SDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERLG 343
Query: 352 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 411
LIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPGET
Sbjct: 344 LIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPGET 403
Query: 412 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDIS 471
HHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWEDIS
Sbjct: 404 HHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWEDIS 463
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
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 = 744 bits (1921), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 383/518 (73%), Positives = 436/518 (84%), Gaps = 26/518 (5%)
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 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
LK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA+
Sbjct: 226 LKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAE 285
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERL
Sbjct: 286 MSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERL 345
Query: 351 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 410
GLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ K+FSLDR+AFPSLNGLPGE
Sbjct: 346 GLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKIFSLDRDAFPSLNGLPGE 405
Query: 411 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 470
THHSYIADNRVENNPWHG DD ALK+EV+KLI TLGEREREIIRLYYGLDKECLTWEDI
Sbjct: 406 THHSYIADNRVENNPWHGYDDLALKEEVSKLISATLGEREREIIRLYYGLDKECLTWEDI 465
Query: 471 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
SKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 466 SKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 503
>gi|6682869|dbj|BAA88921.1| sigma factor [Nicotiana tabacum]
Length = 508
Score = 721 bits (1862), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 368/509 (72%), Positives = 426/509 (83%), Gaps = 2/509 (0%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNP 60
MM+TAAVIGLSAGKRLLSSSFYYSD++EK + +D V S KNV+ AKKSS+Y+P
Sbjct: 1 MMSTAAVIGLSAGKRLLSSSFYYSDLNEKLTCTSDHSLPCHHVPSIKNVITAKKSSDYSP 60
Query: 61 SFPSSNRQTQPIKALKEHVD-TNFASTAEPWAEPPNSIEEESSELDYSVEALLLLQKSML 119
S SS R++Q K+LKEHVD T S 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 LRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP 239
LRS+I PEL+QNRLKGYVKGVVSEELLTHAEV++LSKKI+ GL L++ K RLKERLGCEP
Sbjct: 180 LRSIIGPELLQNRLKGYVKGVVSEELLTHAEVLQLSKKIQVGLYLEEQKSRLKERLGCEP 239
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S +QLA SL++SR +LQS L+ECSLARE+L MSNVRLVMSIAQRYDN+GA+MADLVQGGL
Sbjct: 240 SDDQLAVSLKMSRTDLQSTLIECSLARERLAMSNVRLVMSIAQRYDNVGAEMADLVQGGL 299
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR 359
IGLLRGIEKFD SKG+KISTYVYWWIRQGVSRALVENSRTLRLP +LHERL LIRNAK R
Sbjct: 300 IGLLRGIEKFDPSKGYKISTYVYWWIRQGVSRALVENSRTLRLPTYLHERLSLIRNAKAR 359
Query: 360 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 419
LEEKG+TPSV+ IA LNMSQKKVRNATEA K++SLDREAFPSLNGLPGET HSYIADN
Sbjct: 360 LEEKGITPSVNNIAASLNMSQKKVRNATEASSKMYSLDREAFPSLNGLPGETLHSYIADN 419
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRE 479
+ENNPWHGVD WALKDEVN LI TL +REREIIRLYYGLD ECLTWEDISKRIGLSRE
Sbjct: 420 HLENNPWHGVDVWALKDEVNNLISSTLRDREREIIRLYYGLDNECLTWEDISKRIGLSRE 479
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLVKH 508
RVRQVGLVALEKLKHAARK++++AML+K
Sbjct: 480 RVRQVGLVALEKLKHAARKRQLDAMLIKQ 508
>gi|2706544|emb|CAA75859.1| Sig1 [Sinapis alba]
Length = 481
Score = 721 bits (1861), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 372/513 (72%), Positives = 424/513 (82%), Gaps = 38/513 (7%)
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 GCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 295
GCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDNMGA+M+DLV
Sbjct: 209 GCEPSDEQLAMSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNMGAEMSDLV 268
Query: 296 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 355
QGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHERLGLIRN
Sbjct: 269 QGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHERLGLIRN 328
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
AKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ K+FSLDR+AFPSLNGLPGETHHSY
Sbjct: 329 AKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKIFSLDRDAFPSLNGLPGETHHSY 388
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 475
IADNR+ENNPWHG D ALKDEV+KLI VTLGEREREIIRLYYGLDKECLTWEDIS+RIG
Sbjct: 389 IADNRLENNPWHGYDALALKDEVSKLISVTLGEREREIIRLYYGLDKECLTWEDISQRIG 448
Query: 476 LSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
LSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 449 LSRERVRQVGLVALEKLKHAARKRKMEAMILKN 481
>gi|359489968|ref|XP_002264964.2| PREDICTED: RNA polymerase sigma-B factor-like isoform 2 [Vitis
vinifera]
Length = 497
Score = 715 bits (1845), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 373/513 (72%), Positives = 423/513 (82%), Gaps = 21/513 (4%)
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 GCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 295
G EP+ EQ+AASLR+SR ELQS L+ECSLAREKL MSNVRLVMSIAQRYDNMGA+MADLV
Sbjct: 225 GSEPTDEQVAASLRMSRAELQSKLIECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLV 284
Query: 296 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 355
QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP+HLHERL LIRN
Sbjct: 285 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPSHLHERLSLIRN 344
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
AK+RLEEKG+TPS+DRIAE LNMSQKKVRNATEAI KVFSLDREAFPSLNGLPGET HSY
Sbjct: 345 AKIRLEEKGITPSIDRIAECLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSY 404
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 475
IAD R+ENNPWHGVD+WALKDEVNKLI TLGERER+IIRLYYGLD ECLTWEDISKRIG
Sbjct: 405 IADVRLENNPWHGVDEWALKDEVNKLINTTLGERERDIIRLYYGLDNECLTWEDISKRIG 464
Query: 476 LSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
LSRERVRQVGLVALEKLK+AARK +MEAMLVK+
Sbjct: 465 LSRERVRQVGLVALEKLKNAARKGRMEAMLVKY 497
>gi|297737220|emb|CBI26421.3| unnamed protein product [Vitis vinifera]
Length = 555
Score = 713 bits (1841), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 371/510 (72%), Positives = 421/510 (82%), Gaps = 28/510 (5%)
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 QLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE 238
++R+ + ++NRLKGYVKGVVSEELLTHA+VV LS KIK GL L+DHK RLKER+G E
Sbjct: 229 RVRAALG---VENRLKGYVKGVVSEELLTHAQVVLLSNKIKAGLLLEDHKSRLKERIGSE 285
Query: 239 PSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 298
P+ EQ+AASLR+SR ELQS L+ECSLAREKL MSNVRLVMSIAQRYDNMGA+MADLVQGG
Sbjct: 286 PTDEQVAASLRMSRAELQSKLIECSLAREKLAMSNVRLVMSIAQRYDNMGAEMADLVQGG 345
Query: 299 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 358
LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP+HLHERL LIRNAK+
Sbjct: 346 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPSHLHERLSLIRNAKI 405
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
RLEEKG+TPS+DRIAE LNMSQKKVRNATEAI KVFSLDREAFPSLNGLPGET HSYIAD
Sbjct: 406 RLEEKGITPSIDRIAECLNMSQKKVRNATEAISKVFSLDREAFPSLNGLPGETLHSYIAD 465
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSR 478
R+ENNPWHGVD+WALKDEVNKLI TLGERER+IIRLYYGLD ECLTWEDISKRIGLSR
Sbjct: 466 VRLENNPWHGVDEWALKDEVNKLINTTLGERERDIIRLYYGLDNECLTWEDISKRIGLSR 525
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAMLVKH 508
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 = 692 bits (1786), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 348/485 (71%), Positives = 400/485 (82%), Gaps = 29/485 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 469
ETHHSYIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 470 ISKRI 474
ISKRI
Sbjct: 464 ISKRI 468
>gi|6682871|dbj|BAA88922.1| sigma factor [Nicotiana tabacum]
Length = 502
Score = 689 bits (1778), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 354/505 (70%), Positives = 414/505 (81%), Gaps = 7/505 (1%)
Query: 6 AVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPSFPSS 65
A+IGLSAG R+LSSSFYYS ++EKF ++D S KNV+ AK SSNY+PS+ S
Sbjct: 3 AIIGLSAGNRILSSSFYYSVLTEKFC-VSDHALPCHHFPSPKNVINAKNSSNYSPSYVS- 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 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
I PEL+QNR KGY+ GVV +ELLTH EVV+LSKKIK GL L++ K RLKERLGCEPS +Q
Sbjct: 178 IGPELLQNRSKGYINGVVGQELLTHTEVVQLSKKIKFGLYLEEQKSRLKERLGCEPSDDQ 237
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
LA SL+ISR +L+S L+ECSLAREKL MSNVRLVMSIAQRYD G +MADL+QGGLIGLL
Sbjct: 238 LAISLKISRADLRSTLIECSLAREKLAMSNVRLVMSIAQRYDTNGTEMADLIQGGLIGLL 297
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
RGIEKFD S+GFKISTYVYWWIRQGVSRALVENSRTLRLP HLHERL LIRNAK++L+E
Sbjct: 298 RGIEKFDHSRGFKISTYVYWWIRQGVSRALVENSRTLRLPIHLHERLSLIRNAKIKLKEN 357
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G+TPS+++IAE LNMSQKKVRNATEA KVFSLDREAFPSLNGLPGET HSYIADNR+EN
Sbjct: 358 GITPSIEKIAECLNMSQKKVRNATEASSKVFSLDREAFPSLNGLPGETLHSYIADNRLEN 417
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 483
PWHGVD+W LKDEVN LI TL EREREI+RLYYGLD ECLTWEDIS+RIGLSRERVRQ
Sbjct: 418 IPWHGVDEWMLKDEVNNLISSTLREREREIVRLYYGLDNECLTWEDISRRIGLSRERVRQ 477
Query: 484 VGLVALEKLKHAARKKKMEAMLVKH 508
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 = 495 bits (1275), Expect = e-137, Method: Compositional matrix adjust.
Identities = 277/526 (52%), Positives = 363/526 (69%), Gaps = 30/526 (5%)
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 TGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMS 279
G+ L + +LKE+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RLV+S
Sbjct: 232 DGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVIS 291
Query: 280 IAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRT 339
IAQ+YDN+G ++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T
Sbjct: 292 IAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKT 351
Query: 340 LRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE 399
RLP +LHERL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++
Sbjct: 352 FRLPTYLHERLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQ 411
Query: 400 AFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 459
AFPSLNGLPGET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G
Sbjct: 412 AFPSLNGLPGETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHG 471
Query: 460 LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ 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 = 494 bits (1272), Expect = e-137, Method: Compositional matrix adjust.
Identities = 278/529 (52%), Positives = 365/529 (68%), Gaps = 37/529 (6%)
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 KIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
KIK G+ L + +LKE+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RL
Sbjct: 228 KIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRL 287
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIAQ+YDN+G ++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL EN
Sbjct: 288 VISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAEN 347
Query: 337 SRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 396
S+T RLP +LHERL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SL
Sbjct: 348 SKTFRLPTYLHERLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSL 407
Query: 397 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRL 456
D++AFPSLNGLPGET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRL
Sbjct: 408 DQQAFPSLNGLPGETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRL 467
Query: 457 YYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
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 = 488 bits (1256), Expect = e-135, Method: Compositional matrix adjust.
Identities = 275/515 (53%), Positives = 364/515 (70%), Gaps = 28/515 (5%)
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 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
LKE+LG EPS +QLA SL IS PEL++ + E LARE L MSN+RLV+SIAQ+YDN+G +
Sbjct: 223 LKEKLGNEPSYKQLAQSLHISPPELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVE 282
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+ RLP +LHERL
Sbjct: 283 LADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKAFRLPTYLHERL 342
Query: 351 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 410
IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+
Sbjct: 343 IAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVNKVLSLDQQAFPSLNGLPGD 402
Query: 411 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 470
T HSYI D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+ K+C TWEDI
Sbjct: 403 TLHSYIEDQNVANDPWHGFEERYLKEEVNNLINSTLNERERDIIRLYHGIGKQCHTWEDI 462
Query: 471 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
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 = 486 bits (1251), Expect = e-134, Method: Compositional matrix adjust.
Identities = 273/510 (53%), Positives = 362/510 (70%), Gaps = 22/510 (4%)
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 GCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 295
G EPS +QLA SLRI PEL++ + E LARE L MSN RLV+SIAQ+YDN+G ++ DL+
Sbjct: 224 GNEPSYKQLAQSLRIPAPELRARMRESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLI 283
Query: 296 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN 355
QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSR+ RLP +LHERL IR
Sbjct: 284 QGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRSFRLPTYLHERLVAIRG 343
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+T HSY
Sbjct: 344 AKYALEDQGIAPTVENIAESLNISEKKVHNATEAVHKVISLDQQAFPSLNGLPGDTLHSY 403
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIG 475
I D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+ K+C TWEDIS++ G
Sbjct: 404 IEDQNVANDPWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGIGKQCHTWEDISRQFG 463
Query: 476 LSRERVRQVGLVALEKLKHAARKKKMEAML 505
LSRERVRQVGLVA+EKLKHAAR++ ++A+L
Sbjct: 464 LSRERVRQVGLVAMEKLKHAARREHLDALL 493
>gi|2624403|emb|CAA74653.1| plastid RNA polymerase sigma factor [Sorghum bicolor]
Length = 500
Score = 486 bits (1251), Expect = e-134, Method: Compositional matrix adjust.
Identities = 274/515 (53%), Positives = 363/515 (70%), Gaps = 28/515 (5%)
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 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
LKE+LG EPS +QLA SL IS PEL++ + E LARE L MSN+RLV+SIAQ+YDN+G +
Sbjct: 223 LKEKLGNEPSYKQLAQSLHISPPELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVE 282
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+ RLP +LHERL
Sbjct: 283 LADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKAFRLPTYLHERL 342
Query: 351 GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 410
IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AFPSLNGLPG+
Sbjct: 343 IAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVNKVLSLDQQAFPSLNGLPGD 402
Query: 411 THHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDI 470
T HSYI D V N+PWHG ++ LK+EVN LI L ERER+IIRLY+G+ K+C TWEDI
Sbjct: 403 TLHSYIEDQNVANDPWHGFEERYLKEEVNNLINSNLNERERDIIRLYHGIGKQCHTWEDI 462
Query: 471 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
S++ GLSRERVRQVGLVA+EKLKHAAR+K ++A+L
Sbjct: 463 SRQFGLSRERVRQVGLVAMEKLKHAARRKHLDALL 497
>gi|326512474|dbj|BAJ99592.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 485 bits (1249), Expect = e-134, Method: Compositional matrix adjust.
Identities = 269/522 (51%), Positives = 348/522 (66%), Gaps = 36/522 (6%)
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 LDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQR 283
L + +L E LG EPS +Q+A SLRIS PEL+S + E LARE L MSN+RLV+SIAQ+
Sbjct: 222 LQQQRSKLTEILGNEPSYKQMAQSLRISTPELRSRMRESFLAREVLTMSNIRLVISIAQK 281
Query: 284 YDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP 343
YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSRT RLP
Sbjct: 282 YDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRTFRLP 341
Query: 344 NHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPS 403
++HERL IR AK LE++GV+P+ IAE LN+S+KKV NATEA+ K SLD++AFPS
Sbjct: 342 TYMHERLIAIRAAKYALEDQGVSPTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPS 401
Query: 404 LNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE 463
LNGLPG+T HSYI D V N+PWHG ++W LK+EVN L+I L ERER IIRLY+G+ K+
Sbjct: 402 LNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQ 461
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
C TWEDIS++ GLSRERVRQVGL+A+EKLKHAAR+KK++A+L
Sbjct: 462 CHTWEDISRQFGLSRERVRQVGLIAMEKLKHAARRKKLDALL 503
>gi|326523529|dbj|BAJ92935.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 484 bits (1246), Expect = e-134, Method: Compositional matrix adjust.
Identities = 268/522 (51%), Positives = 348/522 (66%), Gaps = 36/522 (6%)
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 LDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQR 283
L + +L E LG EPS +Q+A SLRIS PEL+S + E LARE L MSN+RLV+SIAQ+
Sbjct: 222 LQQQRSKLTEILGNEPSYKQMAQSLRISTPELRSRMRESFLAREVLTMSNIRLVISIAQK 281
Query: 284 YDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP 343
YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+T RLP
Sbjct: 282 YDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKTFRLP 341
Query: 344 NHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPS 403
++HERL IR AK LE++GV+P+ IAE LN+S+KKV NATEA+ K SLD++AFPS
Sbjct: 342 TYMHERLIAIRAAKYALEDQGVSPTTQNIAELLNISEKKVHNATEAVNKALSLDQQAFPS 401
Query: 404 LNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE 463
LNGLPG+T HSYI D V N+PWHG ++W LK+EVN L+I L ERER IIRLY+G+ K+
Sbjct: 402 LNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNNLLISNLTERERHIIRLYHGIGKQ 461
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
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 = 478 bits (1231), Expect = e-132, Method: Compositional matrix adjust.
Identities = 243/407 (59%), Positives = 317/407 (77%), Gaps = 15/407 (3%)
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 SGRRR-GAGRKSV-----------AISPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKI 214
Query: 219 KTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVM 278
K G+ L + +LKE+LG EPS +QLA SLRIS PEL++ + E LARE L MSN+RLV+
Sbjct: 215 KDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRISAPELRARMRESFLAREMLTMSNIRLVI 274
Query: 279 SIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSR 338
SIA +YDN+G D+ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+
Sbjct: 275 SIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSK 334
Query: 339 TLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
T RLP +LHERL IR AK LE++G+ P+++ IAE LN+S+KKV NATEA+ KV SLD+
Sbjct: 335 TFRLPTYLHERLIAIRGAKYALEDQGIAPTIENIAESLNISEKKVHNATEAVNKVLSLDQ 394
Query: 399 EAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYY 458
+AFPSLNGLPG+T HSYI D V N+PWHG ++ LK+EVN LI L ERER+IIRLY+
Sbjct: 395 QAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEEMYLKEEVNNLINSNLNERERDIIRLYH 454
Query: 459 GLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
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 = 471 bits (1213), Expect = e-130, Method: Compositional matrix adjust.
Identities = 241/404 (59%), Positives = 315/404 (77%), Gaps = 14/404 (3%)
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 LSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIA 281
+ L + +LKE+LG EPS +QLA SLRI PEL++ + E LARE L MSN RLV+SIA
Sbjct: 112 IWLQHQRSKLKEKLGNEPSYKQLAQSLRIPAPELRARMRESFLAREMLAMSNTRLVISIA 171
Query: 282 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 341
Q+YDN+G ++ DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NSR+ R
Sbjct: 172 QKYDNLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALADNSRSFR 231
Query: 342 LPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 401
LP +LHERL IR AK LE++G+ P+V+ IAE LN+S+KKV NATEA+ KV SLD++AF
Sbjct: 232 LPTYLHERLVAIRGAKYALEDQGIAPTVENIAESLNISEKKVHNATEAVHKVISLDQQAF 291
Query: 402 PSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD 461
PSLNGLPG+T HSYI D V N+PWHG ++ LK+EVN LI TL ERER+IIRLY+G+
Sbjct: 292 PSLNGLPGDTLHSYIEDQNVANDPWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGIG 351
Query: 462 KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
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 = 469 bits (1206), Expect = e-129, Method: Compositional matrix adjust.
Identities = 271/534 (50%), Positives = 362/534 (67%), Gaps = 35/534 (6%)
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 VRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVM 271
V+LSKKIK G+ L + +LKE+LG EPS +Q+A SLRIS PEL+S + + LARE L M
Sbjct: 235 VQLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTPELRSRMRDSFLAREVLTM 294
Query: 272 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 331
SN+RLV+SIAQ+YD +G ++ DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSR
Sbjct: 295 SNLRLVISIAQKYDKLGVELPDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSR 354
Query: 332 ALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 391
AL +NS+T RLP +LHERL IR AK LE++G++P+ + IAE LN+S+KKV NAT+A+
Sbjct: 355 ALADNSKTFRLPTYLHERLIAIRGAKYALEDQGISPTTENIAESLNISEKKVHNATDAVN 414
Query: 392 KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERER 451
KV SLDR+AFPSLNGLPG+T HSYI D V N+PWHG + W LK+EVNKL+ TL ERER
Sbjct: 415 KVLSLDRQAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEQWYLKEEVNKLLNSTLTERER 474
Query: 452 EIIRLYYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+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 = 466 bits (1200), Expect = e-129, Method: Compositional matrix adjust.
Identities = 238/397 (59%), Positives = 305/397 (76%), Gaps = 15/397 (3%)
Query: 115 QKSMLEKQWNLSFER------TVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQN 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 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
+LKE+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G
Sbjct: 141 SKLKEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLG 200
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
++ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHE
Sbjct: 201 VELADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHE 260
Query: 349 RLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLP 408
RL IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLP
Sbjct: 261 RLIAIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLP 320
Query: 409 GETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWE 468
GET HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWE
Sbjct: 321 GETLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWE 380
Query: 469 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
DIS++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 381 DISRQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 417
>gi|37806470|dbj|BAC99905.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 388
Score = 463 bits (1192), Expect = e-128, Method: Compositional matrix adjust.
Identities = 237/394 (60%), Positives = 302/394 (76%), Gaps = 15/394 (3%)
Query: 118 MLEKQWNLSFER------TVLTDSPSKKTHKKVPVTCSGVSARQRRLNSKKKILSQNKSI 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 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
KE+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++
Sbjct: 112 KEKLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVEL 171
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
ADL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL
Sbjct: 172 ADLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLI 231
Query: 352 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 411
IR AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET
Sbjct: 232 AIRGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGET 291
Query: 412 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDIS 471
HSYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS
Sbjct: 292 LHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDIS 351
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 352 RQFGLSRERVRQVGLIAMEKLKHAARRKNLEALL 385
>gi|4218586|emb|CAA10725.1| chloroplast sigma factor [Triticum aestivum]
Length = 461
Score = 463 bits (1191), Expect = e-128, Method: Compositional matrix adjust.
Identities = 235/417 (56%), Positives = 307/417 (73%), Gaps = 23/417 (5%)
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 AEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREK 268
+VV LSKKIK G+ L + +LKE+LG EPS +Q+A SLRIS PEL+S + E LARE
Sbjct: 162 KQVVHLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTPELRSRMRESFLAREV 221
Query: 269 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 328
L MSN+RLV+SIAQ+YD +G +++DL+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQG
Sbjct: 222 LTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQG 281
Query: 329 VSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 388
VSRAL +NS+T RLP +LHERL IR AK LE++GV+P+ IA+ LN+S+KKV NATE
Sbjct: 282 VSRALADNSKTFRLPTYLHERLIAIRGAKYALEDQGVSPTTQNIAKLLNISEKKVHNATE 341
Query: 389 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 448
A+ K SLD++AFPSLNGLPG+T HSYI D V N+PWHG ++W LK+EVNKL+ L E
Sbjct: 342 AVNKALSLDQQAFPSLNGLPGDTLHSYIEDQNVANDPWHGFEEWYLKEEVNKLLNSNLTE 401
Query: 449 REREIIRLYYGLDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
RER+II+LY+G+ K+C TWEDIS++ GLSRERVRQVGL+A+EKLK AR+KK++A+L
Sbjct: 402 RERDIIQLYHGIGKQCHTWEDISRQFGLSRERVRQVGLIAMEKLKQRARRKKLDALL 458
>gi|125560253|gb|EAZ05701.1| hypothetical protein OsI_27933 [Oryza sativa Indica Group]
Length = 372
Score = 457 bits (1176), Expect = e-126, Method: Compositional matrix adjust.
Identities = 218/332 (65%), Positives = 274/332 (82%), Gaps = 2/332 (0%)
Query: 174 QNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE 233
+NG+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK G+ L + +LKE
Sbjct: 40 KNGAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKE 97
Query: 234 RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++AD
Sbjct: 98 KLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELAD 157
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI 353
L+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL I
Sbjct: 158 LIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLIAI 217
Query: 354 RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 413
R AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET H
Sbjct: 218 RGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLH 277
Query: 414 SYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKR 473
SYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS++
Sbjct: 278 SYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDISRQ 337
Query: 474 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 338 FGLSRERVRQVGLIAMEKLKHAARRKNLEALL 369
>gi|37806471|dbj|BAC99906.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 342
Score = 455 bits (1171), Expect = e-125, Method: Compositional matrix adjust.
Identities = 218/332 (65%), Positives = 274/332 (82%), Gaps = 2/332 (0%)
Query: 174 QNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE 233
+NG+ +SPELIQ+R + Y++G VS+ELLTH +VV LS KIK G+ L + +LKE
Sbjct: 10 KNGAAHF--AVSPELIQSRNRIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKE 67
Query: 234 RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
+LG EPS +QLA SL+IS PEL+S + E LARE L MSN+RLV+SIAQ+YDN+G ++AD
Sbjct: 68 KLGNEPSYKQLAHSLKISPPELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELAD 127
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI 353
L+QGGLIGLLRGIEKFD+S+GF+ISTYVYWWIRQGVSRAL ENS+T RLP +LHERL I
Sbjct: 128 LIQGGLIGLLRGIEKFDASRGFRISTYVYWWIRQGVSRALAENSKTFRLPTYLHERLIAI 187
Query: 354 RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 413
R AK LE++G+ P+++ IA LN+S+KKV NATEA+ KV SLD++AFPSLNGLPGET H
Sbjct: 188 RGAKYELEDQGIAPTIENIAGSLNISEKKVLNATEAVNKVLSLDQQAFPSLNGLPGETLH 247
Query: 414 SYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKR 473
SYI D V N+PWHG ++W LK+EVNKL+ TL ERER+IIRLY+G+ K+C TWEDIS++
Sbjct: 248 SYIEDQNVANDPWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGIGKQCHTWEDISRQ 307
Query: 474 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
GLSRERVRQVGL+A+EKLKHAAR+K +EA+L
Sbjct: 308 FGLSRERVRQVGLIAMEKLKHAARRKNLEALL 339
>gi|3769432|gb|AAC78468.1| RNA polymerase sigma factor 2 [Zea mays]
Length = 349
Score = 442 bits (1136), Expect = e-121, Method: Compositional matrix adjust.
Identities = 210/322 (65%), Positives = 266/322 (82%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
ISPEL+Q+R + Y++G VS++LLTH +V++LS+KIK G+ L + +LKE+LG EPS +Q
Sbjct: 25 ISPELMQSRNRIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQ 84
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
LA SLRIS PEL++ + E LARE L MSN+RLV+SIA +YDN+G D+ADL+QGGLIGLL
Sbjct: 85 LAQSLRISAPELRARMRESFLAREMLTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLL 144
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
RGIEKFD+S+GF+ISTYVYWWIRQGVSRAL +NS+T RLP +LHERL IR AK LE++
Sbjct: 145 RGIEKFDASRGFRISTYVYWWIRQGVSRALADNSKTFRLPTYLHERLLAIRGAKYALEDQ 204
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G+ P+++ IAE LN+S KKV NATEA+ KV SLD++AFPSLNGLPG+T HSYI D V N
Sbjct: 205 GIAPTIENIAESLNISVKKVHNATEAVHKVLSLDQQAFPSLNGLPGDTLHSYIEDQNVAN 264
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWEDISKRIGLSRERVRQ 483
+PWHG ++ LK+EVN LI L ERER+IIRLY+G+ K+C TWEDIS++ GLSRERVRQ
Sbjct: 265 DPWHGFEEMYLKEEVNNLINSNLNERERDIIRLYHGIGKQCHTWEDISRQFGLSRERVRQ 324
Query: 484 VGLVALEKLKHAARKKKMEAML 505
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 = 282 bits (722), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 162/402 (40%), Positives = 250/402 (62%), Gaps = 19/402 (4%)
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 KLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNM 287
+ +L LG PS E+ A + +S +L L E AR+K+VM+N+RLV+S+A++Y +
Sbjct: 392 RKKLAAELGYVPSNEEWAPHMNLSVGDLVRKLGEAEWARDKMVMANLRLVVSVAKQYHSF 451
Query: 288 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLH 347
G +MADL+Q G IGLLRG+EKFD ++G+K+STYV+WWIRQGV+RA+ ++SRT+RLP H+H
Sbjct: 452 GLEMADLIQEGSIGLLRGVEKFDHTRGYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVH 511
Query: 348 ERLGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE-AFPSLNG 406
+ LG IR AK L +G T SV I+E N++ K++N + K+ SLD+E +L
Sbjct: 512 DTLGRIRKAKSTLLSEGCTASVQEISEATNLTGTKIKNTLQVTKKLVSLDKEIGRNTLQS 571
Query: 407 LPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE--- 463
GET HS +AD +EN PW V+ +KD+V+KL+ LG RER+I+RL+YG+ +E
Sbjct: 572 GDGETLHSLVADRDIENQPWTIVERMLMKDDVDKLLTSQLGPRERDIVRLHYGVGREDGS 631
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ E IS R G+SRERVRQ+ A+ KL+ +R++ ++ L
Sbjct: 632 VMSLESISYRYGVSRERVRQLETAAMRKLQIKSREQGLDRYL 673
>gi|346680879|gb|AEO45243.1| sigma factor [Nicotiana tabacum]
Length = 264
Score = 265 bits (678), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 153/267 (57%), Positives = 195/267 (73%), Gaps = 7/267 (2%)
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 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
I PEL+QNR KGY+ GVV +ELLTH EVV+LSKKIK GL L++ K RLKERLGCEPS +Q
Sbjct: 178 IGPELLQNRSKGYINGVVGQELLTHTEVVQLSKKIKFGLYLEEQKSRLKERLGCEPSDDQ 237
Query: 244 LAASLRISRPELQSILMECSLAREKLV 270
LA SL+ISR +L+SIL+ECSLAREKL
Sbjct: 238 LAISLKISRADLRSILIECSLAREKLA 264
>gi|407327701|dbj|BAM45408.1| sigma factor 1 [Marchantia polymorpha]
Length = 574
Score = 257 bits (657), Expect = 9e-66, Method: Compositional matrix adjust.
Identities = 183/562 (32%), Positives = 298/562 (53%), Gaps = 72/562 (12%)
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 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+ +Q A + ++ +L + L E LAR+++VM+N+RLV+S+ ++Y+ G ++ DL+Q
Sbjct: 299 HPITKDQWAGHMHMAVGDLDAQLHEAELARDRMVMANLRLVVSVVKQYNCEGLEVPDLIQ 358
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 356
G IGLL+G+EKFD ++G+K+STYV+WWIRQGV+RA+ ++SRT+RLP H+H+ LG IR
Sbjct: 359 EGSIGLLKGVEKFDHTRGYKLSTYVHWWIRQGVTRAIADHSRTVRLPVHVHDTLGRIRRT 418
Query: 357 KLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG--ETHHS 414
+ R+ + G +V +++ LN+S +V+NA + K+ SLD + + L G ET HS
Sbjct: 419 RARMLQDGAPATVQTLSKALNLSDNQVKNALKVPKKLKSLDMQVGHQKSVLTGDTETFHS 478
Query: 415 YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK---ECLTWEDIS 471
+AD EN+PW V+ +K++V+K++ LG REREII+++YG+D ++ E IS
Sbjct: 479 LVADQDSENHPWAVVEKAHMKEDVDKMLNTQLGSREREIIKMHYGVDSVDGYPMSLESIS 538
Query: 472 KRIGLSRERVRQVGLVALEKLK 493
R G+SRERVRQ+ A KL+
Sbjct: 539 HRYGVSRERVRQLERAAKRKLQ 560
>gi|407327703|dbj|BAM45409.1| sigma factor 2 [Marchantia polymorpha]
Length = 615
Score = 187 bits (475), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 190/318 (59%), Gaps = 8/318 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
Q+ ++ Y++ + +LLT +E + L++ I+ L ++ K L+E++G EP++ + A ++
Sbjct: 302 QDPVRAYLRDIGKTKLLTSSEEIELAEGIQDLLRVESVKNDLREQMGREPTLMEWAKAVG 361
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
R L+S + ++++V SN+RLV+SIA+RY G + DL+Q G +GL+RG EKF
Sbjct: 362 TERHSLESRIKSGQACKDRMVNSNLRLVVSIAKRYQGRGMTIQDLIQEGSMGLIRGAEKF 421
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D ++GFK STY +WWIRQ ++RA+ + SRT+RLP H++E L I AK L E G P
Sbjct: 422 DHTRGFKFSTYAHWWIRQAITRAIADQSRTIRLPVHVYELLSRITKAKSMLAAEHGRAPR 481
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ +AE + +S +K++ ++ S++ FP G +T + ++ ++P
Sbjct: 482 DEEVAELVGLSIEKLKMVIKSARSPKSME---FPV--GKNNDTTLGEVIPDKDIDSPEEA 536
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
+ LK +++ +++ TL RER+++RL YGLD + T E+I ++RER+RQ+
Sbjct: 537 ISKRLLKQDLD-VVLHTLSPRERDVLRLRYGLDDGRMRTLEEIGNVFKVTRERIRQIEAK 595
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+ +R + L
Sbjct: 596 ALRKLRQPSRNTALREYL 613
>gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii]
gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii]
Length = 485
Score = 187 bits (475), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 186/308 (60%), Gaps = 9/308 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL E ++L+++I L + K+ L+E+L EP+ + A+ ++S
Sbjct: 132 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 191
Query: 253 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ ++IL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 192 VKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 251
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 370
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 252 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 311
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 312 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 366
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 489
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 367 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 425
Query: 490 EKLKHAAR 497
KL+ R
Sbjct: 426 RKLRQPYR 433
>gi|399950016|gb|AFP65672.1| RNA-polymerase sigma factor [Chroomonas mesostigmatica CCMP1168]
Length = 485
Score = 187 bits (474), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 186/308 (60%), Gaps = 9/308 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL E ++L+++I L + K+ L+E+L EP+ + A+ ++S
Sbjct: 135 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 194
Query: 253 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ ++IL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 195 VKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 254
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 370
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 255 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 314
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 315 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 369
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 489
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 370 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 428
Query: 490 EKLKHAAR 497
KL+ R
Sbjct: 429 RKLRQPYR 436
>gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta]
Length = 490
Score = 186 bits (473), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 111/308 (36%), Positives = 186/308 (60%), Gaps = 9/308 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL E ++L+++I L + K+ L+E+L EP+ + A+ ++S
Sbjct: 132 VRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACKVSD 191
Query: 253 -PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ +SIL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 192 VKKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 251
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 370
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 252 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSPTEE 311
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IAE ++MS +K+R+ ++ SL+R P N +I + + +P V+
Sbjct: 312 EIAEKMDMSVEKLRSVLQSAQPTLSLER---PLKNDDDASQLSDFIEAD--QESPEEHVE 366
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 489
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 367 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 425
Query: 490 EKLKHAAR 497
KL+ R
Sbjct: 426 RKLRQPYR 433
>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 = 186 bits (472), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 109/306 (35%), Positives = 186/306 (60%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + +LLTH E + +K+++ ++L K L+E+LG EP+ Q A ++S
Sbjct: 11 VRSYLKEIGRVDLLTHEEEIHYAKRVQREIALVKIKDSLQEKLGQEPTYSQWAKEAKLSV 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL++ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELKTTLEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRKLAQQKGRMATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE--NNPWHGV 429
+AE L ++ K+VR+ E + SLD + G+ + + + D V+ +P
Sbjct: 191 LAEELELTPKQVRDYLEKSRQPISLDVKV--------GDNNDTELGDMLVDMGQSPEDYA 242
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+L+ ++++L + L +++E+I L +GL D + LT I + +SRERVRQ+ A
Sbjct: 243 TSSSLRKDLSRL-MSELTPQQQEVISLRFGLRDGKPLTLAKIGTFLSISRERVRQIEREA 301
Query: 489 LEKLKH 494
L KL+
Sbjct: 302 LTKLRQ 307
>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 = 186 bits (472), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 113/307 (36%), Positives = 185/307 (60%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E + +K+++ ++L+ + + E G EP+ Q A + +ISR
Sbjct: 11 VRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLRDDIIEETGQEPTEIQWAKTAKISR 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
ELQSI+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELQSIIEIGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATVVE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDDGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++ +L + L +++E+I L +G LD + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLERL-MEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 487 VALEKLK 493
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 = 186 bits (471), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 110/307 (35%), Positives = 186/307 (60%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E + +K+++ + ++ K L+++LG EP+ Q A + I+
Sbjct: 11 VRSYLKEIGRVPLLTHEEEILYAKRVQQQIKVEKIKESLQDKLGEEPTESQWADAAEITV 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL++I+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELRNIIQAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++KG T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQKGRTATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L ++ K+VR E + SLD G+ + + + D + + +D
Sbjct: 191 LAEELELTPKQVREYLEKSRQPISLDVRV--------GDNNDTELGD--MLEDTGASPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ +++KL + L ++RE+I L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATYSSLRKDLDKL-MTDLTPQQREVISLRFGLSDGKPLTLAKIGDCLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALAKLR 306
>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 = 185 bits (469), Expect = 6e-44, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 186/308 (60%), Gaps = 9/308 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL E ++L+++I L + K+ L+++L EP+ + A+ ++S
Sbjct: 115 VRWYLQLIGRVRLLRPDEEIQLAREISQLLHWEHVKISLRDKLRREPTNSEWTAACKVSD 174
Query: 253 P-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ +SIL A+E++V +N+RLV+SIA+RY N G + DL+Q G +GL+R EKFDS
Sbjct: 175 VRKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEKFDS 234
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVD 370
KGFK STY WW++Q V+RA+ ++SRT+RLP HL++ + IR L E G +P+ +
Sbjct: 235 EKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRNLNIEIGRSPTEE 294
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IA+ ++MS +K+RN ++ SL+R P N +I + + +P V+
Sbjct: 295 EIAKRMDMSVEKLRNVLQSAQPTLSLER---PLKNDDDTSQLSDFIEAD--QESPEEHVE 349
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVAL 489
L+D++ +I +L RER+++R+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 350 KSMLRDDLEN-VINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAI 408
Query: 490 EKLKHAAR 497
KL+ R
Sbjct: 409 RKLRQPYR 416
>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 = 184 bits (467), Expect = 9e-44, Method: Compositional matrix adjust.
Identities = 107/306 (34%), Positives = 180/306 (58%), Gaps = 15/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L+ ++ + G EP+ Q A + RISR
Sbjct: 11 VRSYLREIGRVPLLTHEEEILYAKRVQRFVDLEKYRELFTKETGKEPTETQWAQAARISR 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL S + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RELHSAIASGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L + +G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQARGRDATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR E + SLD G+ + + D ++ P +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGDLLEDDGP--SPED 240
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+A + ++++ L +++E+I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEILMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIERE 300
Query: 488 ALEKLK 493
AL KL+
Sbjct: 301 ALSKLR 306
>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 = 183 bits (464), Expect = 2e-43, Method: Compositional matrix adjust.
Identities = 109/307 (35%), Positives = 184/307 (59%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E + +K+++ ++L+ + + E G EP+ Q A + ++S+
Sbjct: 11 VRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLREEIIEETGQEPTESQWAKAAKLSK 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E +SI+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 REFRSIVESGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATVTE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDDGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++ +L + L +++E+I L +G LD + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLERL-MEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALSKLR 306
>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 = 182 bits (463), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 110/308 (35%), Positives = 188/308 (61%), Gaps = 9/308 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + +LL E ++L+++I L + K+ LKE+LG EP+ + +A+ +IS
Sbjct: 86 VRWYLQLIGKVKLLKPEEEIQLAREISQLLQWEHIKVFLKEKLGREPTALEWSAACKISD 145
Query: 253 PE-LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ +++L A+E+++ +N+RLV+SIA+RY N G + DLVQ G +GL+R EKFDS
Sbjct: 146 VQKFKTVLYNSRKAKERMIAANLRLVVSIAKRYSNRGMSLQDLVQEGSLGLIRATEKFDS 205
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVD 370
KGFK STY WWI+Q VSRA+ ++SRT+RLP HL++ L I + ++ E G +P+ +
Sbjct: 206 EKGFKFSTYATWWIKQSVSRAIADHSRTIRLPVHLYDTLSAIKKTTRILTIELGRSPTEE 265
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IA ++++ K+R+ ++ SL++ P N +I + + +P V+
Sbjct: 266 EIACKMDVTVDKLRSVLQSAQPTLSLEK---PIKNDGDTAQLSDFIEAD--QESPDEHVE 320
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 489
L+D++ +I +L RER++IR+ YGLD + T E+I + ++RERVRQ+ A+
Sbjct: 321 KSMLRDDLRD-VINSLSLRERDVIRMRYGLDDGKIRTLEEIGQIFSVTRERVRQIEAKAI 379
Query: 490 EKLKHAAR 497
KL+ R
Sbjct: 380 RKLRQPYR 387
>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 = 182 bits (463), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 104/305 (34%), Positives = 180/305 (59%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + + L ++LG EP+ Q A + +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 71
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 429
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 192 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTTNSPEQFA 243
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 244 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 302
Query: 489 LEKLK 493
L KL+
Sbjct: 303 LTKLR 307
>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 = 182 bits (461), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 104/305 (34%), Positives = 180/305 (59%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + + L ++LG EP+ Q A + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 83
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 429
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTSNSPEQFA 255
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 489 LEKLK 493
L KL+
Sbjct: 315 LTKLR 319
>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 = 182 bits (461), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 106/316 (33%), Positives = 186/316 (58%), Gaps = 9/316 (2%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG +P++
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIHYGKQVQRCTTLYEVRENLATQLGYQPTL 73
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E+ AAS ++ EL + + E +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 74 EEWAASAQVEPVELNTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGSIG 133
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 134 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 193
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+K G P+ +A+ L ++ ++VR E SLD + + GE A
Sbjct: 194 QKLGRAPTAIELADELELTPRQVRECLEKARLPLSLDLRLGDNYDTELGEMLEDTGA--- 250
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
P V +L ++ +L + L +++E+I+L +GL D + LT I + + +SRE
Sbjct: 251 ---TPEDFVIQSSLSSDIERL-MKELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRE 306
Query: 480 RVRQVGLVALEKLKHA 495
RVRQ+ AL KL+ +
Sbjct: 307 RVRQIEREALTKLRKS 322
>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 = 182 bits (461), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 106/305 (34%), Positives = 180/305 (59%), Gaps = 9/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E +R K+++ +L + + L +LG EP++E+ A ++
Sbjct: 25 VRTYLREIGRVPLLTHEEEIRYGKQVQRSTALQEVRESLASQLGREPTLEEWAKESKLDI 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L + + +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 85 ADLNDAIADGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G PSV
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSVGE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ K+VR E SLD + + GE A +P V
Sbjct: 205 LATELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA------SPEEFVMQ 258
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L ++ + ++ L ++RE+I L +GL D + LT I + + +SRERVRQ+ AL
Sbjct: 259 TSLSSDLER-VMEELTPQQREVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALN 317
Query: 491 KLKHA 495
KL+ +
Sbjct: 318 KLRKS 322
>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 = 181 bits (460), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 107/307 (34%), Positives = 186/307 (60%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ ++L+ K L E LG EP++ Q A + ++++
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKRVQRFVALETLKESLTEELGQEPTIAQWAKAAKMTQ 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+S + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELRSAIEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +EKG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L ++ ++VR E + SLD G+ + + D + + +D
Sbjct: 191 LAEELELTPRQVREYLERARQPLSLDLRV--------GDNQDTELGD--LLEDTGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++++L + L +++E++ L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATHSSLQLDLDRL-MEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALAKLR 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 = 181 bits (460), Expect = 5e-43, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 188/321 (58%), Gaps = 20/321 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR------ 249
Y++ + LL E V L+++++ + L D +LRL++ LG EP++ + AA
Sbjct: 49 YLQEIGRVPLLGRDEEVALAQRVQDYMKLLDVRLRLQKELGREPTLAEWAARANQYPEWA 108
Query: 250 -ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
++ +LQ I A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EK
Sbjct: 109 NLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 168
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTP 367
FD KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG TP
Sbjct: 169 FDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTP 228
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNP 425
+++ IA L M+ +VR + + SL+ + G+ + + D + +P
Sbjct: 229 TIEDIASELEMTVPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDISP 280
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+ AL ++ +L + L RER++IR+ +GL D + +I + + LSRERVRQ+
Sbjct: 281 EETMMREALHRDLQQL-LADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQI 339
Query: 485 GLVALEKLKHAARKKKMEAML 505
AL+KL+ R+ ++ L
Sbjct: 340 EAKALQKLRQPKRRNRVRDYL 360
>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 = 181 bits (460), Expect = 6e-43, Method: Compositional matrix adjust.
Identities = 104/305 (34%), Positives = 180/305 (59%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + + L ++LG EP+ Q A + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSV 83
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 429
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTSNSPDEFA 255
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 489 LEKLK 493
L KL+
Sbjct: 315 LTKLR 319
>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 = 181 bits (459), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 184/308 (59%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + K+++ +L + + L +LG +P++E+ A + ++
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEAREYLAAQLGRQPTLEEWATTAKLES 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL I+ + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 TELNDIIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSAGE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L ++ K+VR E SLD G+ + + + + + +P ++
Sbjct: 191 LAEELELTTKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPEE 240
Query: 432 WALKDEVNKLIIVTLGE---REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+ ++ ++ + +GE +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 241 FVMQSSLSLDLERLMGELTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 300
Query: 488 ALEKLKHA 495
AL KL+ +
Sbjct: 301 ALTKLRKS 308
>gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba]
Length = 575
Score = 181 bits (459), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 124/381 (32%), Positives = 213/381 (55%), Gaps = 15/381 (3%)
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-ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
N Y++ S +LLT E +LS+ I+ L L+ + L ER G +P+ Q A++
Sbjct: 255 DHNDPLRYLRMTTSSSKLLTAREEQQLSEGIQDLLKLERLQAELTERCGHQPTFSQWASA 314
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+ + L+ + + +++++ SN+RLV+SIA+ Y G D DLVQ G GL+RG E
Sbjct: 315 AGVDKKTLRKRITHGTQCKDRMIKSNIRLVISIAKNYQGAGMDFQDLVQEGCRGLVRGAE 374
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVT 366
KFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E ++ A+ +L E G
Sbjct: 375 KFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKQ 434
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P + +AE +S K++ + SLD++ +LN P E IAD E +
Sbjct: 435 PKNEEVAEATGLSMKRLMAVLLSPKPPRSLDQKIGINLNLKPSEV----IADPEAETSED 490
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
+ + ++ +++K ++ +L RE+++IR +G+ D T ++I + +G+SRERVRQ+
Sbjct: 491 ILMKQF-MRQDLDK-VLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQID 548
Query: 486 LVALEKLKHAARKKKMEAMLV 506
A KLK+ R ++ LV
Sbjct: 549 TSAFRKLKNKKRNSHLQQYLV 569
>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 = 181 bits (459), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 105/310 (33%), Positives = 179/310 (57%), Gaps = 35/310 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECS-------------- 263
IK +SL + + +L +LG PS+E+LA + I+ EL+ L E
Sbjct: 110 IKNFVSLIEKRDQLTSQLGHRPSLERLADAAEITVFELKKTLYEGKRHWAELANLEVQEL 169
Query: 264 --------LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
A+E+++ +N+RLV+S+A+RY N G ++ DL+Q G +GL R ++KFD +KG+
Sbjct: 170 ERVQKAGIYAKEQMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVDKFDPTKGY 229
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + KG TPS++ +++
Sbjct: 230 RFSTYAYWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKIAQLKGATPSIEELSQ 289
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
L MS ++R + + SL+ + G+ + + D E +P + +
Sbjct: 290 ELEMSPPQIREVLMRVPRSVSLEIKV--------GKEKDTELIDLLETTEASPEDNIANE 341
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
AL+ +++ L + L RERE+I+L YG D + + DI + + LSRERVRQ+ A++K
Sbjct: 342 ALRQDLHNL-LADLTTREREVIQLRYGFKDGKSYSLADIGRTLQLSRERVRQIEAKAIQK 400
Query: 492 LKHAARKKKM 501
L+ R+ ++
Sbjct: 401 LRQPKRRNQI 410
>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 = 181 bits (459), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 107/303 (35%), Positives = 180/303 (59%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + L+K+++ ++L D K L + L EP + A++ +I+
Sbjct: 11 VRAYLREIGRVPLLTHEEEIVLAKRVQRFMALQDIKDALTQTLKREPQDSEWASAAKITE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + A+EK+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELHRAIAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQAKGRAATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L ++ ++VR+ E + SLD + + + GE +P
Sbjct: 191 LAEELELTPRQVRDYLERARQPLSLDLKVGDNQDTELGELLED------TGTSPEDYATH 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E++ L +GL D + LT I R+ +SRERVRQ+ AL
Sbjct: 245 SSLQVDLEKL-MSDLTPQQKEVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALS 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 181 bits (459), Expect = 9e-43, Method: Compositional matrix adjust.
Identities = 114/314 (36%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L+ +GCEP+ E+ A +
Sbjct: 82 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERKRTELEATIGCEPTDEEWAEEVD 141
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 MPLQKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPT 261
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 262 EEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 311
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGL D T E+I + ++RER+RQ
Sbjct: 312 PEDEVSKSLLREDLED-VLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNVTRERIRQ 370
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 371 IEAKALRKLRHPNR 384
>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 = 181 bits (458), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 117/316 (37%), Positives = 181/316 (57%), Gaps = 27/316 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ G+ +LLT A+ V L+K+I+ GL + KL C P QL A L +
Sbjct: 39 VRAYLNGIGRTKLLTAAQEVELAKRIEAGL-FAEEKL-----TTCTPVSAQLQADLTL-- 90
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
I E A+ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 91 -----IAQEGQAAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYT 145
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L G PSV
Sbjct: 146 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELSVSLGREPSVAE 205
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L++ + +V ++ S DRE SL+ GE S + D +P VDD
Sbjct: 206 IARALDVPEFQVI-------ELISYDREPV-SLDQTVGEDGESALGDFVAAVDPSSMVDD 257
Query: 432 ---WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
L++EV+ +++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+ V
Sbjct: 258 ADRGELRNEVS-IVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKV 316
Query: 488 ALEKLKHAARKKKMEA 503
L KL+ R +++EA
Sbjct: 317 TLLKLRAPERAQRLEA 332
>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 = 181 bits (458), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 113/309 (36%), Positives = 183/309 (59%), Gaps = 10/309 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTG--LSLDDHKLRLKERLGCEPSMEQLAASLRI 250
++ Y++ + +LLT +E V LS+KI+ L L+ K L+ +G EPS+ + + ++ +
Sbjct: 276 VRAYLRDIGKTKLLTASEEVALSRKIQARDLLVLEKVKSDLQREIGREPSIGEWSRAVGM 335
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+ + + E +++K+V SN+RLV+SI + Y G + DL+Q G +GL+RG EKFD
Sbjct: 336 EQNAFELRVKEGRYSKDKMVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSMGLIRGAEKFD 395
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSV 369
KGFK STY +WWIRQ V+RA+ + SR +RLP HL+E + I A K+ ++E G P
Sbjct: 396 PDKGFKFSTYAHWWIRQAVTRAIADQSRIIRLPIHLYEVISRINKAKKMLIQEHGRQPRD 455
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ +AE + MS +K++ ++ S+DR + GE IAD VE +P +
Sbjct: 456 EEVAELVGMSVEKLKFIVKSAKTPSSMDRLIGKEKDQSIGE----MIADKDVE-SPEDDL 510
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
LK +V+ ++ TL RERE++RL +GLD + T E+I ++RER+RQ+ A
Sbjct: 511 IRQVLKQDVDG-VLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKA 569
Query: 489 LEKLKHAAR 497
+ KL+ +R
Sbjct: 570 MRKLRQPSR 578
>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 = 181 bits (458), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/320 (33%), Positives = 189/320 (59%), Gaps = 19/320 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L + K L + L +PS+E+ A + ++
Sbjct: 25 VRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQLDP 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL +L + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD S
Sbjct: 85 QELNRLLGQGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPS 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ L + G +PS+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRYLSQTLGRSPSIAE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ K+VR+ E SLD G+ + + + + + +P +D
Sbjct: 205 LAQELEITPKQVRDCLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 432 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ +L E++++ + L ++RE+I+L +GL D + +T I + + +SRERVRQ+
Sbjct: 255 YVIQSSLSSELDRM-MTHLTPQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIER 313
Query: 487 VALEKLKHAARKKKMEAMLV 506
AL +L+ K M LV
Sbjct: 314 EALTRLRRC--KTSMSEYLV 331
>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 = 180 bits (457), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 107/313 (34%), Positives = 185/313 (59%), Gaps = 9/313 (2%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M + E+ ++ ++ Y++ + LLTH E V K+++ + L + L E+L +P+
Sbjct: 1 MRTKEIAKDSVRSYLREIGRVPLLTHEEEVTFGKQVQHLIKLQTIRDELAEQLERQPNDA 60
Query: 243 QLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+ +A+ ++S ELQ L E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSAAAKLSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQ 180
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 421
K G ++ +A L+++ K+VR E + SLD + + GE I D
Sbjct: 181 KLGRAATISELATSLDLTTKQVREYLERARQPLSLDVRVGDNQDTELGE----LIEDP-- 234
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 480
+P + +L+ ++ +L + L +++++++ L +GLD + LT I R+ +SRER
Sbjct: 235 SESPENFTLQASLRGDLERL-MADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRER 293
Query: 481 VRQVGLVALEKLK 493
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>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 = 180 bits (457), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 104/319 (32%), Positives = 188/319 (58%), Gaps = 17/319 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L + K L + L +PS+E+ A + ++
Sbjct: 25 VRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQLDP 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL +L + +A+ K+V +N+RL++S+A++Y D+ DL+Q G IG+ RG+EKFD S
Sbjct: 85 QELNRLLAQGEIAKRKMVEANLRLLVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPS 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ L + G +PS+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRDLSQTLGRSPSIAE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ K+VR+ E SLD G+ + + + + + +P +D
Sbjct: 205 LAQELEITPKQVRDCLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+ ++ ++ + ++ L ++RE+I+L +GL D + +T I + + +SRERVRQ+
Sbjct: 255 YVIQSSLSSELERMMTHLTTQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIERE 314
Query: 488 ALEKLKHAARKKKMEAMLV 506
AL +L+ K M LV
Sbjct: 315 ALTRLRRC--KTSMSEYLV 331
>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 = 180 bits (456), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 113/318 (35%), Positives = 193/318 (60%), Gaps = 25/318 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E V S++++ ++L+ K L E EP++++ A + +I++
Sbjct: 11 VRSYLKEIGRVPLLTHEEEVVYSRRVQQMVALEKLKAELTEHQEDEPTLKEWAKAAKITQ 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ + + A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KELKKRMSIGAQAKQKMVEANLRLVVSVAKKYIKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKNGRAATIPE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV-- 429
+AE L+++ K+VR+ E + SLD G+ + + + +E HG
Sbjct: 191 LAEELDLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTEL----IELLEDHGTTP 238
Query: 430 DDW----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
DD+ ALK +++++ I L +++E++ L +GL D + T I + + +SRERVRQ+
Sbjct: 239 DDFATSAALKRDLHRM-ISDLTAQQQEVLTLRFGLNDGQPHTLAKIGEHLSISRERVRQI 297
Query: 485 GLVALEKLKHAARKKKME 502
AL KL RK+K E
Sbjct: 298 EREALSKL----RKRKSE 311
>gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis
NIES-39]
Length = 331
Score = 180 bits (456), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 179/305 (58%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + + L ++L EP+ Q A + +S
Sbjct: 24 VRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLAYEPTEAQWAELVNLSV 83
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ IL + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 84 AQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 143
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 144 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATMNE 203
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 429
+A L+++ K++R E SLD G+ + + D N+P
Sbjct: 204 LAAELDLTPKQIREYLEKSRLPLSLDLRV--------GDNQDTELVDLLEDTTNSPEQFA 255
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
+ +L+ ++ L + L +++R+++ L +GLD + LT I R+ +SRERVRQ+ A
Sbjct: 256 LNSSLRSDLESL-MTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREA 314
Query: 489 LEKLK 493
L KL+
Sbjct: 315 LTKLR 319
>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 = 180 bits (456), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 106/305 (34%), Positives = 178/305 (58%), Gaps = 9/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + K+++ +L + + L +LG EP++E+ A + ++
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVRELLATQLGREPTLEEWATATQLEL 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 TELNQAIADAEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G PSV
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAPSVAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ ++VR E SLD + + GE A +P V
Sbjct: 191 LAQELELTSRQVREYLEKARVPLSLDIRLGDNYDTELGEMLEDPGA------SPEEFVTQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L ++ +L + L ++RE+I L +GL D LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSGDLERL-MAELTPQQREVISLRFGLNDGHALTLAKIGEILNISRERVRQIEREALS 303
Query: 491 KLKHA 495
KL+ +
Sbjct: 304 KLRKS 308
>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 = 180 bits (456), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 110/321 (34%), Positives = 188/321 (58%), Gaps = 20/321 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL------- 248
Y++ + LL E V L++K++ + L D +LRL++ LG +P++ + A
Sbjct: 51 YLQEIGRVPLLGRDEEVALAQKVQDYMKLLDLRLRLQKELGRDPTLAEWVAKANQYPEWA 110
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
+++ +LQ I A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EK
Sbjct: 111 QLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEK 170
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTP 367
FD KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG TP
Sbjct: 171 FDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTP 230
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNP 425
+++ IA L M+ +VR + + SL+ + G+ + + D + +P
Sbjct: 231 TIEDIASELEMTPPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDISP 282
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+ AL ++ +L + L RER++IR+ +GL D + +I + + LSRERVRQ+
Sbjct: 283 EETMMREALHRDLQQL-LSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVRQI 341
Query: 485 GLVALEKLKHAARKKKMEAML 505
AL+KL+ R+ ++ L
Sbjct: 342 EAKALQKLRQPKRRNRVRDYL 362
>gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis]
Length = 592
Score = 180 bits (456), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 109/306 (35%), Positives = 176/306 (57%), Gaps = 8/306 (2%)
Query: 202 SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILME 261
S LLT +E V LS+ I+ + LD + + KE+ G EP++ Q A + + + L+ L
Sbjct: 291 SSRLLTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEV 350
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
+ +K++ N+RLV+S+A+ Y N G + DL+Q G +GL+R EKFD S+GFK STY
Sbjct: 351 GRDSFDKIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYA 410
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRIAEYLNMSQ 380
YWWIRQ +++AL E SRT+RLP H+ E + IR A +L +E P+ + +AE +S
Sbjct: 411 YWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISM 470
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK 440
++R+ T SLDR ++ E +AD E+ V K ++++
Sbjct: 471 TRLRHVTRCSRVPTSLDRCVGKDMD----EKFSEIVADTNSESTE-TIVSKELFKKDLDR 525
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL RE++++RL YGLD + + ++ + LSRERVRQ+ + A+ KL+ R +
Sbjct: 526 -VLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQ 584
Query: 500 KMEAML 505
++ L
Sbjct: 585 HLKHYL 590
>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 = 179 bits (455), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 115/326 (35%), Positives = 188/326 (57%), Gaps = 32/326 (9%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
IS +L+ + Y+ G+ +LLT A+ V L+++I+ GL D KL C P E+
Sbjct: 36 ISTDLV----RAYLNGIGRTKLLTAAQEVDLARRIEAGL-FADEKL-----ATCTPVSEE 85
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
L R +L+ I+ E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+
Sbjct: 86 L-------RADLELIVAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLI 138
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
R +EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L
Sbjct: 139 RAVEKFDYAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELAVT 198
Query: 364 -GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIAD 418
G P+V +A L++ + +V ++ S DRE SL+ G+ S ++A
Sbjct: 199 LGREPTVAEVARALDIPEFQVI-------ELISYDREPV-SLDQAVGDDGESALGDFVAS 250
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLS 477
+P G L++EV+ +++ TL +RE+ +IRL +GLD T +++ + GLS
Sbjct: 251 VDPRTDPGEGAAQGELRNEVS-IVLSTLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLS 309
Query: 478 RERVRQVGLVALEKLKHAARKKKMEA 503
RER+RQ+ V L KL+ R +++EA
Sbjct: 310 RERIRQIEKVTLLKLRAPERAQRLEA 335
>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 = 179 bits (455), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 105/303 (34%), Positives = 176/303 (58%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + V K+++ L+D K L RLG PS E+ A + ++S
Sbjct: 11 VRTYLREIGRVPLLTHEQEVVFGKQVQRLTLLNDTKDGLANRLGRTPSFEEWAQASQLSS 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AELKQAIAEGEYAKRKMVEANLRLVVSVAKKYTKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAATAAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L+++ K+VR+ E + SLD + + GE +P
Sbjct: 191 LAQELDLTPKQVRDYLEQARQPLSLDLRVGDNQDTELGELLED------TGTSPEEFALQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ L + L ++R+++ L +GL D + LT I ++ +SRERVRQ+ AL
Sbjct: 245 SSLRTDLESL-MADLTPQQRQVLTLRFGLEDGQALTLAKIGDQLNISRERVRQIEREALS 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 179 bits (455), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 101/308 (32%), Positives = 184/308 (59%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E +R K+++ +L + + L +LG EPS+E+ A + I+
Sbjct: 25 VRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEVREELATQLGREPSIEEWAKAANINS 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 85 ADLLGAIADGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G P+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L ++ K+VR E SLD G+ + + + + + +P +D
Sbjct: 205 LANELELTPKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+ ++ ++ ++++ L +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 255 FVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 314
Query: 488 ALEKLKHA 495
AL KL+ +
Sbjct: 315 ALTKLRKS 322
>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 = 179 bits (454), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 110/320 (34%), Positives = 191/320 (59%), Gaps = 19/320 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + G+ + + + + +P +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKV--------GDNQDTELGE--LLEDPGLSPED 240
Query: 432 W----ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 486
+ +L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+
Sbjct: 241 YTAYSSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIER 299
Query: 487 VALEKLKHAARKKKMEAMLV 506
A+ KL+ RK K+ L
Sbjct: 300 EAIAKLRK--RKAKIREYLA 317
>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 = 179 bits (453), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 107/303 (35%), Positives = 178/303 (58%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + L+K+++ ++L + K L + L EP + A + +IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPLEHEWAEAAKISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ + A+EK+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EELRRTMAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKQGRAATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ ++VR E + SLD + + GE +P
Sbjct: 191 LAQELELTPRQVREYLERARQPLSLDLRVGDNQDTELGELLED------TGTSPEDYATH 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L ++RE++ L +GL D + LT I R+ +SRERVRQ+ AL
Sbjct: 245 SSLQLDLEKL-MSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALS 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 179 bits (453), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 108/303 (35%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L+ K LK +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis]
Length = 495
Score = 179 bits (453), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 109/306 (35%), Positives = 176/306 (57%), Gaps = 8/306 (2%)
Query: 202 SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILME 261
S LLT +E V LS+ I+ + LD + + KE+ G EP++ Q A + + + L+ L
Sbjct: 194 SSRLLTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEV 253
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
+ +K++ N+RLV+S+A+ Y N G + DL+Q G +GL+R EKFD S+GFK STY
Sbjct: 254 GRDSFDKIINCNLRLVISVAKNYQNRGLSLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYA 313
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRIAEYLNMSQ 380
YWWIRQ +++AL E SRT+RLP H+ E + IR A +L +E P+ + +AE +S
Sbjct: 314 YWWIRQSITKALTEQSRTIRLPVHIVESMTRIRTAWRLLYQEHKRDPTKEEVAEVAGISM 373
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK 440
++R+ T SLDR ++ E +AD E+ V K ++++
Sbjct: 374 TRLRHVTRCSRVPTSLDRCVGKDMD----EKFSEIVADTNSESTE-TIVSKELFKKDLDR 428
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL RE++++RL YGLD + + ++ + LSRERVRQ+ + A+ KL+ R +
Sbjct: 429 -VLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRKLRQNHRTQ 487
Query: 500 KMEAML 505
++ L
Sbjct: 488 HLKHYL 493
>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 = 179 bits (453), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 184/307 (59%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LL+H E + +K+++ ++L+ + + + G EP+ Q A + ++SR
Sbjct: 11 VRAYLKEIGRVPLLSHEEEILYAKRVQRLINLEKLREEIIQETGKEPTNSQWAKAAKLSR 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E S++ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLRV--------GDNQDTELGD--LLEDEGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++ KL + L +++++I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEKL-MEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALSKLR 306
>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 = 179 bits (453), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 106/316 (33%), Positives = 185/316 (58%), Gaps = 9/316 (2%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG +P++
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRSCTLHESRESLATQLGRQPTL 73
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E+ A + ++ EL + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 74 EEWAKATKLEPVELNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 133
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 134 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 193
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+K G P+ +A+ L ++ K+VR E SLD + + GE A
Sbjct: 194 QKLGRAPTAGELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA--- 250
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+P V +L ++++L + L ++RE+I L +GL D + LT I + + +SRE
Sbjct: 251 ---SPEEFVMQSSLSYDLDRL-MGDLTPQQREVITLRFGLTDGQALTLAKIGEILNISRE 306
Query: 480 RVRQVGLVALEKLKHA 495
RVRQ+ AL KL+ +
Sbjct: 307 RVRQIEREALTKLRKS 322
>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 = 178 bits (452), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 184/307 (59%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LL+H E + +K+++ ++L+ + + + G EP+ Q A + ++SR
Sbjct: 11 VRAYLKEIGRVPLLSHEEEILYAKRVQRLVNLEKLREEIIQETGKEPTNSQWAKAAKLSR 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E S++ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 KEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD G+ + + D + + +D
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLRV--------GDNQDTELGD--LLEDEGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++ KL + L +++++I L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FATHSSLQFDLEKL-MEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALSKLR 306
>gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa]
gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa]
Length = 564
Score = 178 bits (451), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 115/320 (35%), Positives = 179/320 (55%), Gaps = 16/320 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ + S LL+ E V LS+ I+ L L+ + LKER G +P+ Q AA+ R+ +
Sbjct: 254 LRFFRGASTSSRLLSATEEVELSEGIQDLLKLERIEEELKERFGGKPTFAQWAAAARVDQ 313
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L+ L L ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG+EKFD+S
Sbjct: 314 ITLRKRLNYAILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGVEKFDAS 373
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KGFK STY +WWIRQ V R+L + SRT+RLP H+ + ++ A+ + E G P
Sbjct: 374 KGFKFSTYAHWWIRQAVRRSLSDQSRTIRLPFHMVDATYRVKEARKQFYSENGRHPDDKE 433
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI-ADNRVENNPWHGVD 430
+AE +S K++ SLD++ G + S + AD E +
Sbjct: 434 VAEATGLSMKRLSAVLLTPKAPRSLDQKM-----GFNMDLKLSEVTADPEAET-----AE 483
Query: 431 DWALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D +K+ + K ++ +L RE ++IR +G+ D T ++I + +G+SRER+RQ+ L
Sbjct: 484 DLLMKEFMKKDLERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIEL 543
Query: 487 VALEKLKHAARKKKMEAMLV 506
A KLK+ R K++ LV
Sbjct: 544 SAFRKLKNKNRTKQLRQYLV 563
>gi|359460652|ref|ZP_09249215.1| RNA polymerase sigma factor SigD [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 178 bits (451), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 184/313 (58%), Gaps = 9/313 (2%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M + E+ ++ ++ Y++ + LLTH E V K+++ + L + L E+L +P+
Sbjct: 1 MRTKEIAKDSVRSYLREIGRVPLLTHEEEVTFGKQVQDLIKLQAIRDELAEQLERQPNDA 60
Query: 243 QLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+ + + ++S ELQ L E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSVAAQLSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQ 180
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 421
K G ++ +A L+++ K+VR E + SLD + + GE I D
Sbjct: 181 KLGRAATISELATALDLTTKQVREYLERARQPLSLDVRVGDNQDTELGE----LIEDP-- 234
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 480
+P + +L+ ++ +L + L +++++++ L +GLD + LT I R+ +SRER
Sbjct: 235 SESPENFTLQASLRGDLERL-MADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRER 293
Query: 481 VRQVGLVALEKLK 493
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>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 = 178 bits (451), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 126/382 (32%), Positives = 209/382 (54%), Gaps = 22/382 (5%)
Query: 140 THKKVPVT----CSGVSARQRRLNSKK--------KILSQNKSILQQNGSKQLRSMISPE 187
THK++ + G++ R RR +K K S S+ + SK+ R +
Sbjct: 194 THKELELLQKQLSEGIAVRSRRQTERKARRARAVEKAASSVVSVKPGSTSKKKRGSLQEV 253
Query: 188 LIQNRLKGYVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAA 246
+ L+ Y++G S LLT +E + LS I+ L L+ + L ER G +P+ Q AA
Sbjct: 254 DYSDPLR-YLRGTTSTSRLLTASEELELSAAIQDLLKLERLQEELAERYGGQPTFAQWAA 312
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ + + L+ + ++ ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG
Sbjct: 313 AAGVDQRTLRKRINHGTICKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGA 372
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGV 365
EKFD+SKGFK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G
Sbjct: 373 EKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGR 432
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 425
P + +AE +S K++ SLD++ +++ P E IAD E
Sbjct: 433 HPDDEEVAEAAGLSMKRLSAVLLTPKAPRSLDQKIGMNMDLKPSEV----IADPEAETAE 488
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+ + +K ++ K ++ TL RE +++R +GL D T ++I + +G+SRER+RQ+
Sbjct: 489 ELLMKQF-MKQDLEK-VLNTLNPRETQVVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQI 546
Query: 485 GLVALEKLKHAARKKKMEAMLV 506
A KLK+ R K+++ L+
Sbjct: 547 ESSAFRKLKNKKRTKQLKQYLL 568
>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 = 178 bits (451), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 108/303 (35%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L+ K LK +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKVKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 178 bits (451), Expect = 7e-42, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 182/313 (58%), Gaps = 9/313 (2%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M + + + ++ Y++ + LLTH + + K+++ +L + L +LG EP++E
Sbjct: 1 MKTAQTTTDLVRTYLREIGRVPLLTHEQEIVYGKQVQRLSTLYALQEELVAKLGREPTLE 60
Query: 243 QLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+ + + RI + L + + E +A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWSEAARIDKTALSTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQ 180
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 421
G PS+ +A L ++ K+VR E SLD + + GE + D +
Sbjct: 181 NLGRAPSIVELATALELTPKQVREYLERARLPLSLDLRVGDNQDTELGE----LLEDTSL 236
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+P V + L ++ KL + L ++RE++ L +GL D + +T I R+ +SRER
Sbjct: 237 --SPEEFVTESCLSTDIEKL-MADLTPQQREVLSLRFGLADGQAMTLAKIGDRLNISRER 293
Query: 481 VRQVGLVALEKLK 493
VRQ+ AL KL+
Sbjct: 294 VRQIEREALTKLR 306
>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 = 177 bits (450), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 109/315 (34%), Positives = 178/315 (56%), Gaps = 15/315 (4%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y++ + LLTH + + K+++ ++L K L LG EP+ Q A + +
Sbjct: 9 DTVRAYLREIGRVPLLTHEQEILYGKQVQRLVALRAVKSSLSAELGDEPNFSQWAQACEL 68
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
ELQ + LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 69 EEQELQQAIATAELAKRKMVEANLRLVVSVAKKYIKRNIDLLDLIQEGTIGMQRGVEKFD 128
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
+KG++ STY YWWIRQ ++RA+ E +R +RLP H+ E+L I+ A+ L +K G +V
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKARAIRLPIHITEKLNKIKKAQRSLSQKLGRAATV 188
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWH 427
+AE L ++ +VR E + SLD G+ + + D +P
Sbjct: 189 TELAEELELTPPQVREYLERARQPLSLDLRV--------GDHQDTELGDLLEDTGPSPED 240
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V A++ ++ KL + L +++R+++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 FVTQSAMQMDLEKL-LSDLTQQQRDVLSLRFGLADGQPLTLAKIGDRLSISRERVRQIER 299
Query: 487 VALEKLKHAARKKKM 501
AL KL+ RK M
Sbjct: 300 EALAKLRK--RKADM 312
>gi|220907092|ref|YP_002482403.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7425]
gi|219863703|gb|ACL44042.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 318
Score = 177 bits (450), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 182/313 (58%), Gaps = 9/313 (2%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M + E ++ ++ Y++ + LLTH + + K+++ + + L +RLG EP +
Sbjct: 1 MKTAETSKDLVRAYLREIGRVPLLTHEQEILYGKQVQQLAIVQQVREELSDRLGHEPDLT 60
Query: 243 QLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+ A + ++S ELQ ++ LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+
Sbjct: 61 EWATAAKLSEAELQGVVNRGELAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGM 120
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +
Sbjct: 121 QRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQ 180
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 421
+ G ++ +A+ L ++ K+VR E + SLD + + GE A
Sbjct: 181 QLGRAATIGELAQELELTPKQVREYLERSRQPLSLDVRVGDNQDTELGELLEDTAA---- 236
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+P +L+ ++++L + L ++R+++ L +GL D + LT + + +SRER
Sbjct: 237 --SPEDFTSQASLRADLDRL-MADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRER 293
Query: 481 VRQVGLVALEKLK 493
VRQ+ AL KL+
Sbjct: 294 VRQIEREALSKLR 306
>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 = 177 bits (450), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 108/303 (35%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L+ K L+ +LG EPS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRAKLGREPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 177 bits (450), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 106/305 (34%), Positives = 178/305 (58%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L D K L + LG EP++E+ A + +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEILYGKQVQRLTALQDMKESLWQELGHEPTLEEWATAAELSP 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL S + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 SELNSHINAGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L + G +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQNLGRAATVGE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGV 429
+A+ L+++ K+VR E + SLD G+ + + + +P V
Sbjct: 191 LAQELDLTPKQVREYLERARQPLSLDLRV--------GDNQDTELVELLEDTGPSPEDFV 242
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A++ ++ KL + L ++RE++ L +GL D + +T I R+ +SRERVRQ+ A
Sbjct: 243 THSAMQVDLEKL-MADLTAQQREVLALRFGLEDGQPMTLAKIGDRLNISRERVRQIEREA 301
Query: 489 LEKLK 493
L KL+
Sbjct: 302 LSKLR 306
>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 = 177 bits (450), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 104/300 (34%), Positives = 172/300 (57%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRP----------------------ELQSILMECSLARE 267
RL LGC PS+ + A + + R EL SIL + A+E
Sbjct: 102 RLAIELGCRPSLNRWAQEMNLERAVLRDIIRQGKQRWAEQVGLSVKELDSILKAGAKAKE 161
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R ++KFD +KG++ STY YWWIRQ
Sbjct: 162 HMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQ 221
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ + +G TPS+D +A+ L M+ ++VR
Sbjct: 222 GITRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQVREV 281
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + + SL+ + G+ + A +P + +L+ +++ L + L
Sbjct: 282 LQKVPRSVSLEIRVGKDRDTELGDLLETQDA------SPEENLVRESLQRDLHNL-LTEL 334
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RERE+I+L YGL D + + +I + + LSRERVRQ+ AL+KL+ R+ M L
Sbjct: 335 TDREREVIQLRYGLGDGKTYSLAEIGRMLELSRERVRQIEAKALQKLRQPKRRNIMRDYL 394
>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 = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 108/303 (35%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L+ K L+ +LG EPS Q + + IS
Sbjct: 11 VRSYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRSQLGREPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 111/316 (35%), Positives = 189/316 (59%), Gaps = 11/316 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +P
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGL--SPEDYTAH 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 245 SSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLKHAARKKKMEAMLV 506
KL+ RK K+ L
Sbjct: 304 KLRK--RKAKIREYLA 317
>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 = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 110/316 (34%), Positives = 188/316 (59%), Gaps = 11/316 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLKHAARKKKMEAMLV 506
KL+ RK K+ L
Sbjct: 304 KLRK--RKAKIREYLA 317
>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 = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 108/316 (34%), Positives = 184/316 (58%), Gaps = 19/316 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL+H E + K+++ +L + L E LG EP++ + A + +S+ EL
Sbjct: 15 YLREIGRVPLLSHEEEILYGKQVQRLTALQEFNQTLAEALGREPTLLEWAEAKELSKSEL 74
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q I+ E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +KG+
Sbjct: 75 QRIIREGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGY 134
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + +L ++ G + + IAE
Sbjct: 135 RFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKVQRQLTQQLGRSATTGEIAE 194
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L ++ K++R L+R P SL+ G+ + + D + + +D+A
Sbjct: 195 ELGLTPKQIREC---------LERARLPLSLDLRVGDNQDTELGD--LLEDTGASPEDYA 243
Query: 434 LKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
L+ + + I+V L ++++++ L +GL D + +T I + +SRERVRQ+ AL
Sbjct: 244 LQSSMRTDLESIMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREAL 303
Query: 490 EKLKHAARKKKMEAML 505
KL+ RK+ M L
Sbjct: 304 SKLRK--RKQDMNDYL 317
>gi|359462714|ref|ZP_09251277.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 331
Score = 177 bits (449), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 106/315 (33%), Positives = 184/315 (58%), Gaps = 15/315 (4%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LLT + ++L ++++T + L+ K +L + G EPSME + + EL
Sbjct: 27 YLRDIGRSPLLTPEQELQLGREVQTMVRLEAVKDQLAQSCGEEPSMETWTKAADLEIAEL 86
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q++L + A++K++ +N+RLV++IA++Y + ++ DL+Q G +GL R EK+D +GF
Sbjct: 87 QTLLEKGHKAKQKMITANLRLVVTIAKKYRDRNLELLDLIQEGTLGLERAAEKYDPQRGF 146
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQG++RA+ E RT+RLP HL E L I+ + L + G +P+ +A+
Sbjct: 147 RFSTYAYWWIRQGITRAIAEQGRTIRLPIHLTEALNKIKRTQRELSQSLGRSPTTAEVAQ 206
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
L+++ +KV+ S+D + G+ S I D +++P V D
Sbjct: 207 ALSLTPEKVQQYLHCAHHTLSIDLKI--------GDDQDSSIVDFIEAPDSSPEKFVSDK 258
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
L + + ++++ TL ++RE++ L YGL D LT + +R+ +SRERVRQ+ AL +
Sbjct: 259 TLSESL-QMLLATLTPQQREVLTLRYGLIDGRELTLAAVGRRMDISRERVRQLQNAALSQ 317
Query: 492 LKHAARKKKMEAMLV 506
L+ RK ++ LV
Sbjct: 318 LQK--RKPEIADYLV 330
>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 = 177 bits (448), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 114/315 (36%), Positives = 183/315 (58%), Gaps = 37/315 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRIS----RP------------------EL 255
IKT ++L + + RL LG PS+E+ AAS IS +P EL
Sbjct: 108 IKTYITLIEAQERLTSELGHRPSLERWAASAGISVMELKPALAVGKRRWAEIAKITVEEL 167
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 168 EQIQNDGIHAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 227
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG TP+++ IA
Sbjct: 228 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLAQEKGRTPTIEDIAL 287
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDD 431
L M+ +VR + + SL+ + G+ + + D +EN+ P +
Sbjct: 288 ELEMTAPQVREVLLRVPRSVSLETKV--------GKEKDTELGD-LLENDSISPEELLMR 338
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
AL ++ +L + L +RER++I + +GL D C + +I + + LSRERVRQ+ AL+
Sbjct: 339 EALHRDLQQL-LADLTDRERDVILMRFGLGDGHCYSLAEIGRALDLSRERVRQIESKALQ 397
Query: 491 KLKHAARKKKMEAML 505
KL+ R+ ++ L
Sbjct: 398 KLRQPKRRNRVRDYL 412
>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 = 177 bits (448), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 190/319 (59%), Gaps = 18/319 (5%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + + ++ Y++ + LL+H + + L ++++ + L++ + K R G EPS E+LA
Sbjct: 10 PPVDGDLVRSYLRDIGRVPLLSHEQEITLGRQVQELVRLEEAEAEFKMRQGHEPSREELA 69
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+S IS L+ L+ A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG
Sbjct: 70 SSFGISPAVLRRRLINGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRG 129
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 364
+EKFD ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G
Sbjct: 130 VEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELG 189
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 424
TP+V +AE+L + + +V++ + SL+ + G++ + + + ++N+
Sbjct: 190 RTPTVGELAEFLELPEPEVKDLLSRARQPVSLEMKV--------GDSDDTELCE-LLQND 240
Query: 425 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRER 480
P VD LK ++ L + L + ++++ YG+D +E ++ I + +G+SR+R
Sbjct: 241 APMPHELVDGDCLKGDMRSL-LEQLPPLQGRVLKMRYGIDVEEPMSLTGIGRELGMSRDR 299
Query: 481 VRQV---GLVALEKLKHAA 496
VR + GL L +L A
Sbjct: 300 VRNLERDGLAGLRRLSEAV 318
>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 = 177 bits (448), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 184/319 (57%), Gaps = 19/319 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L + K L +L EP++E+ AAS +
Sbjct: 11 VRTYLREIGRVPLLTHEQEILYGKQVQRSTALQEIKESLSAQLNREPTLEEWAASAGLES 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AELSKAIALGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQQLGRAATVSE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 430
+A L +S K+VR L+R P SL+ G+ H + + + + + D
Sbjct: 191 LAAELELSPKQVRE---------YLERARLPLSLDLRVGDNHDTELGE--LLEDTGVSPD 239
Query: 431 DWALKDEVNKLI---IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D+ L+ ++ I + L ++RE++ L +GL D + +T I R+ +SRERVRQ+
Sbjct: 240 DFVLQSCMSTDIERMMADLTPQQREVLSLRFGLVDGQSMTLAKIGDRLNISRERVRQIER 299
Query: 487 VALEKLKHAARKKKMEAML 505
AL KL+ RK M+ L
Sbjct: 300 EALTKLRK--RKADMDQYL 316
>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 = 177 bits (448), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 105/312 (33%), Positives = 183/312 (58%), Gaps = 15/312 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
Y + ++ LLT E + L+KK++ +SL K L ++L +P++++ + +++ E
Sbjct: 34 SYFQDIICIPLLTSEEEINLAKKVQQRMSLLAIKEELSKKLQRQPTLQEWSDKAQLNDTE 93
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L + A++K++ +N+RLV++IA++Y D DL+Q G +GL R ++KF + G
Sbjct: 94 LLEQIDRGQRAKQKMIAANLRLVVTIAKKYQKRNLDFLDLIQEGTLGLERAVDKFQPALG 153
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQG++RA+ + SRT+RLP H+ E+L I+ + L +K G PSV IA
Sbjct: 154 YKFSTYAYWWIRQGITRAISQQSRTIRLPIHITEKLNKIKRVQRELSQKLGRNPSVTEIA 213
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E + + ++R+ K SLD GE ++ + D +E+N + +D+
Sbjct: 214 EVMEVKPSQIRDYLSLARKPMSLDVRV--------GEEQNTDLKD-LLEDNSFSP-EDYV 263
Query: 434 LKDEVNKLI---IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
LK+ +N+ I + L +++EI+ L YGL D + LT +S+R+G+SR+RV Q+ AL
Sbjct: 264 LKESLNQTIKDLLSKLSPQQQEILTLRYGLEDGQELTLNQVSQRMGISRQRVLQLQRQAL 323
Query: 490 EKLKHAARKKKM 501
L+ +K ++
Sbjct: 324 AFLQRYGKKSRI 335
>gi|225436223|ref|XP_002273602.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 578
Score = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 181/314 (57%), Gaps = 9/314 (2%)
Query: 196 YVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
Y++G S LLT E + LS+ I+ L L+ + L+ER G +P+ Q AA+ + +
Sbjct: 270 YLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKT 329
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 330 LRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKG 389
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P+ + +A
Sbjct: 390 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVA 449
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E +S K++ SLD++ + N P E IAD E + +
Sbjct: 450 EATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEV----IADPDAETAEELLIKQF- 504
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
+++++ K ++ +L RE+++IR YGL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 505 MREDLEK-VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKL 563
Query: 493 KHAARKKKMEAMLV 506
K+ R K ++ LV
Sbjct: 564 KNKRRTKHLQQYLV 577
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 105/305 (34%), Positives = 180/305 (59%), Gaps = 9/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E +R K+++ +L + + L +L +P++E+ AA+ +I
Sbjct: 11 VRTYLREIGRVPLLTHEEEIRYGKQVQRCTALYEVRENLATQLDRQPNLEEWAAAAQIEL 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 VELNEAIAEGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L +K G P+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTATE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ K+V+ E SLD + + GE A +P V
Sbjct: 191 LAQELELTPKQVQECLEKARLPLSLDLRLGDNYDTELGELLEDTGA------SPEDFVMQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L ++ ++ + L +++E+I+L +G LD + LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSYDLERM-MAELTPQQKEVIKLRFGLLDGQSLTLAKIGEILNISRERVRQIEREALT 303
Query: 491 KLKHA 495
KL+ +
Sbjct: 304 KLRKS 308
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 113/319 (35%), Positives = 183/319 (57%), Gaps = 22/319 (6%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPS-----MEQL 244
++ ++ Y++ + LL E + L++KI L L+ + R+ E+L C+P E
Sbjct: 66 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRISEQLDCDPDDLERHPEPW 125
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A+ ++++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 126 ASEVKMTLPAFRHRLFVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 185
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 363
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E
Sbjct: 186 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEM 245
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 422
G P+ + IAE + M+ +K+R F P SL G+ S + D +E
Sbjct: 246 GRKPTEEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 295
Query: 423 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 478
++ P V L++++ + ++ TL RER++++L YGLD + T E+I + ++R
Sbjct: 296 SDGETPEDQVSKHLLREDL-ETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTR 354
Query: 479 ERVRQVGLVALEKLKHAAR 497
ER+RQ+ AL KL+H R
Sbjct: 355 ERIRQIEAKALRKLRHPNR 373
>gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera]
Length = 575
Score = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 181/314 (57%), Gaps = 9/314 (2%)
Query: 196 YVKGVVS-EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
Y++G S LLT E + LS+ I+ L L+ + L+ER G +P+ Q AA+ + +
Sbjct: 267 YLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKT 326
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ ++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 327 LRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLVQEGCRGLVRGAEKFDASKG 386
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P+ + +A
Sbjct: 387 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVA 446
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E +S K++ SLD++ + N P E IAD E + +
Sbjct: 447 EATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEV----IADPDAETAEELLIKQF- 501
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
+++++ K ++ +L RE+++IR YGL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 502 MREDLEK-VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKL 560
Query: 493 KHAARKKKMEAMLV 506
K+ R K ++ LV
Sbjct: 561 KNKRRTKHLQQYLV 574
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 183/308 (59%), Gaps = 15/308 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E +R K+++ +L + + L + G EPS+E+ A + ++
Sbjct: 25 VRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEMREELATQSGREPSVEEWAKAANLNP 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 85 ADLLEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G P+
Sbjct: 145 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L ++ K+VR E SLD G+ + + + + + +P +D
Sbjct: 205 LANELELTPKQVREYLEKARLPLSLDLRL--------GDNYDTELGE--MLEDPGASPED 254
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+ ++ ++ ++++ L +++E+I L +GL D + LT I + + +SRERVRQ+
Sbjct: 255 FVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIERE 314
Query: 488 ALEKLKHA 495
AL KL+ +
Sbjct: 315 ALTKLRKS 322
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 111/325 (34%), Positives = 190/325 (58%), Gaps = 21/325 (6%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M+SP + ++ Y+K + LLT + + ++ ++ +++++ + L +L +P+
Sbjct: 1 MLSP--TTDSVRSYLKEIGRYPLLTPDQEITNARLVQQMMAVEEQRSNLALQLNRQPTDL 58
Query: 243 QLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+LA SL + ELQS++ + A++K+V +N+RLV+S+A++Y N D DL+Q G +GL
Sbjct: 59 ELATSLGQNEAELQSVIQQGQKAKQKMVTANLRLVVSVAKKYQNYSLDFLDLLQEGALGL 118
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
RGIEKFD +KG+K+STYVYWWI Q ++RA+ + SRT+RLP H++E+L IR + +L +
Sbjct: 119 QRGIEKFDPNKGYKLSTYVYWWITQSITRAVADKSRTIRLPIHINEKLNKIRRVQQQLSQ 178
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV 421
G P V IAE LN+S ++R + + SL++ G+ S +AD
Sbjct: 179 SLGRPPVVAEIAESLNLSPNQIREYLQISKPLVSLEKRV--------GDEGESELADIL- 229
Query: 422 ENNPWHGV--DDWALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIG 475
P G+ D+ + + + ++ L R+RE++ L +GL D + LT ++KR+
Sbjct: 230 ---PMDGISLDEQITLESLQQDLAKLLALLKPRQREVLTLRFGLSDNQQLTLSQVAKRLN 286
Query: 476 LSRERVRQVGLVALEKLKHAARKKK 500
LSRE +R+ +AL L+ K K
Sbjct: 287 LSRETIRKTEHLALSILRSHQNKIK 311
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 107/303 (35%), Positives = 184/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +P
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGL--SPEDYTAH 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 245 SSLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 105/316 (33%), Positives = 184/316 (58%), Gaps = 9/316 (2%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+M + + + ++ Y++ + LLTH E + K+++ +L + + L +LG +P++
Sbjct: 31 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVREFLATQLGRQPNL 90
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E+ AA+ ++ L + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 91 EEWAAATKLETTALNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 150
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 151 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 210
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
++ G P+ +A+ L ++ K+VR E SLD + + GE A
Sbjct: 211 QQLGRAPTAAELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA--- 267
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+P V +L ++ +L I L +++E+I L +GL D + LT I + + +SRE
Sbjct: 268 ---SPEEFVMQSSLSYDLERL-IAELTPQQKEVITLRFGLIDGQALTLAKIGEILNISRE 323
Query: 480 RVRQVGLVALEKLKHA 495
RVRQ+ AL KL+ +
Sbjct: 324 RVRQIEREALTKLRKS 339
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGE----LLEDTGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 181/303 (59%), Gaps = 8/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ +V LLTH E + SK+++ ++L + K LK++L EPS ++LA +++S
Sbjct: 20 VRNYLQDIVRVPLLTHEEEISSSKQVQQMITLQNKKETLKKQLNHEPSQKELAQYVQLSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ I + A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFDS+
Sbjct: 80 MEVKEIFQKGVQAKQKMIAANLRLVVSIAKKYQGRNVEFMDLIQEGSLGLERGVEKFDST 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWI QG++RA+ + SRT+RLP HL E+L ++ + L +K +PS+
Sbjct: 140 RGYKFSTYAYWWISQGMTRAISQQSRTIRLPIHLTEKLNKLKKVQRELSQKLNRSPSMFE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IAE + ++ ++R + SLD++ G +T + E +P V
Sbjct: 200 IAEKMQLNPAQIRELLMISRQPVSLDKQV-----GDNEDTELQELLTEAPEASPEIQVTQ 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALE 490
++ ++ L + L ++++++ L+YGL+ C LT +++ + +S RVR + AL
Sbjct: 255 NLMRQDI-YLSLRELTPQQQQVLILHYGLEHNCELTLTQVAQHLNISERRVRYLEKQALS 313
Query: 491 KLK 493
L+
Sbjct: 314 YLR 316
>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 = 176 bits (446), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 187/315 (59%), Gaps = 19/315 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + K +L +RLG EPS + A + +S
Sbjct: 12 VRTYLREIGRVPLLTHEQEILYGKQVQQSAILQEGKEKLAKRLGREPSYAEWAENAGVSL 71
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ L + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 KELKQALEDGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L ++ G ++
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRSLAQDLGRAATIAE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 430
+A+ L+++ K++R L+R P SL+ G+ + + D + + +
Sbjct: 192 LADELDLNPKQIRE---------YLERARLPLSLDLRVGDNQDTELGD--LLEDDGASPE 240
Query: 431 DWALKDEVN---KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 486
D+AL+ + ++++ L +++R+++ L +GL+ + +T I R+ +SRERVRQ+
Sbjct: 241 DYALQSSMRSDLEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQIER 300
Query: 487 VALEKLKHAARKKKM 501
AL KL+ RK+ M
Sbjct: 301 EALTKLRK--RKQDM 313
>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 = 176 bits (446), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 105/307 (34%), Positives = 182/307 (59%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L+ K L E+LG EP++ + A + +S
Sbjct: 23 VRTYLQEIGRVPLLTHEQEILYGKQVQRLNALEQTKESLFEQLGYEPTLCEWAKASSLSE 82
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
ELQS + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 83 AELQSCIRAGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 142
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L + G ++
Sbjct: 143 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQTLGRAATISE 202
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ K+VR E + SLD G+ + + + ++ P +D
Sbjct: 203 LATELDLTPKQVREYLEKARQPLSLDLRV--------GDNQDTELGELLEDSGP--SPED 252
Query: 432 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ A++ ++ KL + L E++RE++ L +GL D + +T I ++ +SRERVRQ+
Sbjct: 253 FATYSAMQVDLEKL-MADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIER 311
Query: 487 VALEKLK 493
AL KL+
Sbjct: 312 EALSKLR 318
>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 = 176 bits (445), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 183/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E + +K+++ + L+ K L+ +LG +PS Q + + IS
Sbjct: 11 VRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGRDPSDRQWSEAAEISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 EQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++KG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + + GE + D + +
Sbjct: 191 LAEELDLTPKQVRDYLERARQPLSLDLKVGDNQDTELGE----LLEDKGLSPEDYTAYS- 245
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+ ++ KL + L +++E+I L +GLD + LT I R+ +SRERVRQ+ A+
Sbjct: 246 -SLQVDLEKL-MADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIA 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 176 bits (445), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 109/309 (35%), Positives = 176/309 (56%), Gaps = 19/309 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LLT AE V L+++++ ++LD+ + RL++ L P+ +LAA+L IS +LQ + +C
Sbjct: 59 LLTAAEEVELARRVQELVALDELEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQS 118
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWW
Sbjct: 119 AKRKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWW 178
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG----LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
IRQG++R + RT+RLP H+ E+L + R+ K L+ P+ +A + +S
Sbjct: 179 IRQGITRTIANQGRTIRLPVHIVEQLNKLKKVYRDLKRSLQR---NPTETELAREMEVSC 235
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
+ +R + R SLN G S + D + +P +++ ++ +
Sbjct: 236 EHLRYLQQV--------RRQSLSLNHRIGSEESSELLDVLEDNATQSPEAQMNEMMMRQD 287
Query: 438 VNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+ +++ L ERE+EI+ + YG L E T E++S LSRERVRQ+ A+ KL+
Sbjct: 288 ILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRRPQ 347
Query: 497 RKKKMEAML 505
++++ L
Sbjct: 348 VTERLKGWL 356
>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 = 175 bits (444), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 112/319 (35%), Positives = 176/319 (55%), Gaps = 27/319 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L+ + L+ +GCEP+ E+ A +
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLSELERTRTELEATIGCEPTDEEWAEEVG 135
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 136 QALPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 195
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 196 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELARKPT 255
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWH 427
+ IAE + M+ +K+R F P SL G+ S + D +
Sbjct: 256 EEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD-------FI 299
Query: 428 GVDDWALKDEVNKL--------IIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
D +DEV+K ++ TL RER+++RL YGL D T E+I + ++R
Sbjct: 300 EADGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNVTR 359
Query: 479 ERVRQVGLVALEKLKHAAR 497
ER+RQ+ AL KL+H R
Sbjct: 360 ERIRQIEAKALRKLRHPNR 378
>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 = 175 bits (444), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 184/314 (58%), Gaps = 17/314 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H E ++ K+++ + L++ + L +LG EP++E+ A + +
Sbjct: 11 VRTYLREIGKVPLLSHEEEIKFGKQVQRAVVLNEVRESLALKLGHEPTLEEWAIASELEP 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 LELNQAIADADEAKRRMVEANLRLVVSVAKKYLKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAPSAGE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
+A+ L+++ +VR E SLD G+ H + + + + +P V
Sbjct: 191 LAKELDLTPAQVREYLEKARLPLSLDLRL--------GDNHDTELGEMLEDTGASPEEFV 242
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+L +++ +L + L ++RE+I + +GL D + +T I + + +SRERVRQ+ A
Sbjct: 243 MQSSLSNDLERL-MANLTPQQREVISMRFGLKDGQSMTLARIGEILNISRERVRQIEREA 301
Query: 489 LEKLKHAARKKKME 502
L KL RK K+E
Sbjct: 302 LTKL----RKSKVE 311
>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 = 175 bits (443), Expect = 5e-41, Method: Compositional matrix adjust.
Identities = 112/310 (36%), Positives = 183/310 (59%), Gaps = 18/310 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP-SMEQLAASLR 249
+ ++ Y++ + LLTH E + +K+I+ +SL++ K L E EP S + A +
Sbjct: 8 DSVRAYLREIGRVPLLTHEEEIVYAKQIQQVVSLNEIKKSLAEGKDGEPVSPSEWAKAAD 67
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+S EL+ + E A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKF
Sbjct: 68 LSIRELEKAIKEGERAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D +KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +EKG S
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAAS 187
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ +AE+L ++ K+VR E SLD G+ + + D ++ P
Sbjct: 188 IAELAEHLELTPKQVREYLERSRHPLSLDLRV--------GDNQDTELGDLLEDDGPLP- 238
Query: 429 VDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
+D+A L+ +++ L + L ++RE++ L +GL D + LT I + +SRERVRQ
Sbjct: 239 -EDFATYASLQLDLDSL-MAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISRERVRQ 296
Query: 484 VGLVALEKLK 493
+ AL KL+
Sbjct: 297 IEREALNKLR 306
>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 = 175 bits (443), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL ERL +P + AA ++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSERLERDPKDSEWAAEVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 175 bits (443), Expect = 6e-41, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL+E+L EP + A +++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQEQLEREPEYREWAEAVQ 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
I P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 IPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 174 bits (442), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 178/307 (57%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L K L E LG +P+ + A ++ +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKNILAEELGRDPTAAEWAQAVGLSE 71
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATAAE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 430
+A L ++ K++R LDR P SL+ G+ + + D + + +
Sbjct: 192 LASELELTPKQIRE---------YLDRARLPLSLDLRVGDNQDTELGD--LLEDTGTTPE 240
Query: 431 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D+AL+ + ++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQSSLRTDLDQLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIER 300
Query: 487 VALEKLK 493
AL KL+
Sbjct: 301 EALTKLR 307
>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 = 174 bits (442), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 106/307 (34%), Positives = 178/307 (57%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L K+++ L + K L E+ G EP+ + + + +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEIVLGKQVQHLSLLHEMKETLTEQFGHEPTDVEWSQAAGLSL 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
ELQ + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 VELQQAIEQGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A L ++ G T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKASRELSQQLGRTATIGE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L +S K++R E SLD G+ H + +++ + P +D
Sbjct: 191 LAVELELSPKQIREYMERARHPLSLDLRV--------GDNHDTELSELLEDTGP--SPED 240
Query: 432 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ A++ ++ KL + L ++RE+I L +GL D + +T I R+ +SRERVRQ+
Sbjct: 241 FATHSAMRADLEKL-MSELTTQQREVIALRFGLEDGQAMTLSKIGDRLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALTKLR 306
>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 = 174 bits (442), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 118/333 (35%), Positives = 187/333 (56%), Gaps = 18/333 (5%)
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 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
+ + G PS ++ AA + + + LM A+EK+V SN+RLV+SIA++Y N G
Sbjct: 154 QFESENGHYPSKKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGL 213
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E
Sbjct: 214 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 273
Query: 350 LGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGL 407
+ I + K+ +E G PS + IAE + M+ +K+R F P SL
Sbjct: 274 ISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLR---------FIAKSAQLPISLETP 324
Query: 408 PGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL 465
G+ S + D NP V L++++ ++ TL RER+++RL YGLD +
Sbjct: 325 IGKEEDSRLGDFIESDSENPELDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRM 383
Query: 466 -TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 384 KTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 416
>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 = 174 bits (442), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 105/305 (34%), Positives = 176/305 (57%), Gaps = 9/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + K+++ SL + + L +L +P++E+ A + +
Sbjct: 11 VRSYLREIGRVPLLTHEEEIFYGKQVQRSSSLQEVREDLASKLDRQPTLEEWAKAAELDI 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AELNEAIADGEFAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L ++ G PS
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPSASE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L ++ K+VR E SLD + + GE A +P V
Sbjct: 191 LASELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGA------SPEEFVMQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L ++ +L + L ++RE+I+L +GL D + LT I + + +SRERVRQ+ AL
Sbjct: 245 SSLSYDLERL-MEQLTPQQREVIKLRFGLMDGQALTLAKIGEILNISRERVRQIEREALT 303
Query: 491 KLKHA 495
KL+ +
Sbjct: 304 KLRKS 308
>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 = 174 bits (441), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 190/320 (59%), Gaps = 17/320 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+M + + + ++ Y++ + LLTH E ++ K+++ L + + L ++G EPS+
Sbjct: 14 AMKTAQTATDLVRTYLREIGRVPLLTHEEEIQYGKQVQFSRILHEVRDSLINQIGREPSL 73
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E+ A + + EL + + A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 74 EEWALAANLEVAELNDAIADGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 133
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L
Sbjct: 134 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLS 193
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADN 419
++ G PS +A+ L+++ K+VR L+R P SL+ G+ + + + +
Sbjct: 194 QQLGRAPSAAELAQELDLTPKQVRE---------YLERARLPLSLDLRLGDNYDTELGE- 243
Query: 420 RVENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIG 475
+ +P +++ ++ ++ + ++ L +++E+I+L +G LD + LT I +
Sbjct: 244 -MLEDPGASPEEFVMQSSLSYDLERLMEELTPQQKEVIKLRFGLLDGQALTLAKIGDILN 302
Query: 476 LSRERVRQVGLVALEKLKHA 495
+SRERVRQ+ AL KL+ +
Sbjct: 303 ISRERVRQIEREALTKLRKS 322
>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 = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 178/307 (57%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L K L E LG +P+ + A ++ +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKDILAEELGRDPTAAEWAQAVGLSE 71
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+LQ + + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 AQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAATAAE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 430
+A L ++ K++R LDR P SL+ G+ + + D + + +
Sbjct: 192 LASELELTPKQIRE---------YLDRARLPLSLDLRVGDNQDTELGD--LLEDTGTTPE 240
Query: 431 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D+AL+ + ++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQSSLRTDLDHLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIER 300
Query: 487 VALEKLK 493
AL KL+
Sbjct: 301 EALTKLR 307
>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 = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 102/290 (35%), Positives = 173/290 (59%), Gaps = 8/290 (2%)
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLA 265
+ HAE + LS+KI+ L +D + +++ G +PS E LA +L+IS L+S + + A
Sbjct: 65 IDHAEEIELSRKIQQKLLIDQARQEWRQQRGEDPSDEALAEALQISVSTLRSRIRQGEQA 124
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
+ KL+ +N+RLV+S+A++Y N G DL+Q G IGL+R EKF++ +GF+ STY +WWI
Sbjct: 125 QRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNIGLIRATEKFNAERGFRFSTYAHWWI 184
Query: 326 RQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVR 384
RQG++R + +RT+RLP H+ +++ L++ L + +G P+ +AE L + KK+R
Sbjct: 185 RQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMKLQGRRPTEAELAEALGIKVKKLR 244
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIV 444
+A SLD P G GE+ + + + P+ G+ +++ +V + +
Sbjct: 245 MIQQAAALPLSLD---VPV--GQEGESRLGDLLQDERQEQPFQGILVQSMQQDV-RSAMQ 298
Query: 445 TLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
TL ER+++ L YGLD ++ T ++ L+RER+RQ+ AL KL+
Sbjct: 299 TLKPIERQVLELRYGLDGQQARTLREVGDHFNLTRERIRQIERDALRKLR 348
>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 = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 182/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL+++L EP + A +++
Sbjct: 82 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQQQLEREPQYSEWAEAVQ 141
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 LPLPQFRHRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 261
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 262 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 311
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 312 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 370
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 371 IEAKALRKLRHPNR 384
>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 = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L EP ++ A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLYEQLEREPQFKEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 174 bits (441), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 106/305 (34%), Positives = 178/305 (58%), Gaps = 9/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + K+++ +L + + L +LG EP++E+ AA+ I
Sbjct: 11 VRTYLREIGRVPLLTHEEEIFYGKQVQRSTALHEIREGLAAQLGHEPTVEEWAAASDIEV 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 SELNQAIAVGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ A+ +L + G P+V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQGLGRAPTVAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+++ L+++ K+VR E SLD + + GE A P V
Sbjct: 191 LSQELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDTGA------TPEDFVMQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L ++ + I+ L +++E+I L +GL D + LT I + + +SRERVRQ+ AL
Sbjct: 245 TSLSYDLER-IMSELTPQQKEVISLRFGLVDGQSLTLAKIGEVLNISRERVRQIEREALN 303
Query: 491 KLKHA 495
KL+ +
Sbjct: 304 KLRKS 308
>gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea]
Length = 575
Score = 174 bits (440), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 112/302 (37%), Positives = 172/302 (56%), Gaps = 9/302 (2%)
Query: 196 YVKGVV-SEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
Y++G S LLT +E LS I+ L L+ LK R G PS Q AA+ I +
Sbjct: 267 YLRGATNSSRLLTSSEETELSAGIQDLLKLEKLHDELKVRFGKSPSFVQWAAAAGIDQRT 326
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L + ++K++ SNVRLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKG
Sbjct: 327 LRRRLNHGTFCKDKMIKSNVRLVISIAKNYQGSGMNLQDLVQEGCRGLVRGAEKFDASKG 386
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIA 373
FK STY +WWI+Q V ++L + SRT+RLP H+ E ++ A+ + L E G P+ + +A
Sbjct: 387 FKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLLSENGKQPNNEEVA 446
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E +S K++ SLD++ ++N P E IAD E +
Sbjct: 447 EATGLSMKRLTAVLMTPKAPRSLDQKIGFNMNLKPSEV----IADPEAETAE-DLLTKQF 501
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ ++ K ++ TL RE+++IR +GL D T ++I + +G+SRER+RQ+ A KL
Sbjct: 502 MRQDLEK-VLDTLSSREKQVIRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKL 560
Query: 493 KH 494
++
Sbjct: 561 QN 562
>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 = 174 bits (440), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 109/296 (36%), Positives = 173/296 (58%), Gaps = 19/296 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LLTH E + L K+++ +SL L + L EP+ + AA+ IS EL +I+
Sbjct: 3 LLTHEEEILLGKQVQKLMSLIAIHSSLVDTLDREPTRTEWAAAGGISEAELAAIVTAGEQ 62
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD SKG++ STY YWW
Sbjct: 63 AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPSKGYRFSTYAYWW 122
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ E SRT+RLP H+ E+L I+ A+ + ++ G TP+ IA+ + K+V
Sbjct: 123 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQFTQQHGRTPTASEIAQATGFTIKQV 182
Query: 384 RNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
R LDR P SL+ G+ + + D + + DD+A LK ++
Sbjct: 183 RE---------YLDRSRQPLSLDLKVGDNQDTQLGD--LLEDDGQTPDDYATASSLKSDL 231
Query: 439 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+ I+ L +++++I L +GL D + +T I + +SRERVRQ+ AL KL+
Sbjct: 232 KR-IMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLR 286
>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 = 174 bits (440), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 108/305 (35%), Positives = 182/305 (59%), Gaps = 9/305 (2%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLT E + +K I+ ++L+ K L ++L EP++ + A + +I
Sbjct: 9 DTIRVYLKEIGRIPLLTQEEEIIYAKHIQELVALEKKKETLAKKLEHEPTLGEWAKAAKI 68
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S LQ + + A+ ++V +N+RLV+SIA++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 69 SEKNLQIKITQGEKAKRRMVEANLRLVVSIAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
+KG++ STY YWWIRQ ++RA+ E SR +RLP H+ E+L IR + +L EEKG ++
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATI 188
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+AE L +S ++VR + SLD + G +T + +++ + +P
Sbjct: 189 AELAEALELSTEQVREYLGKARQPLSLDLKV-----GDNNDTELGELLEDKGQ-SPEDFT 242
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
D L+ ++ K+ + L ++++++IRL YGL D + LT I + +SRERVRQ+ A
Sbjct: 243 DYSCLQFDLKKM-MSELTQQQQDVIRLRYGLEDGKPLTLSKIGDILSISRERVRQIEREA 301
Query: 489 LEKLK 493
L KL+
Sbjct: 302 LTKLR 306
>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 = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL+++L EP ++ A ++
Sbjct: 81 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQDQLEREPQFKEWAEAVE 140
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 141 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 200
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 201 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 260
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 261 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 310
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 311 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 369
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 370 IEAKALRKLRHPNR 383
>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 = 173 bits (439), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L ++ + RL E+L EP + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLEMERVRERLLEQLDREPQDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+S P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LSLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKSLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L L+ + +L E CEP + A+++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARRIADLLELERIREKLVEHNHCEPEDREWASAVD 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
++ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 MALPEFRRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 106/309 (34%), Positives = 176/309 (56%), Gaps = 19/309 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LLT E V L+++++ ++LD+ + RL++ L P+ +LAA+L IS +LQ + +C
Sbjct: 59 LLTATEEVELARRVQELVALDEVEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQS 118
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWW
Sbjct: 119 AKRKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWW 178
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG----LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
IRQG++R + RT+RLP H+ E+L + R+ + L+ P+ +A + ++
Sbjct: 179 IRQGITRTIANQGRTIRLPVHIVEQLNKLKKVYRDLRRSLQR---NPTETELAREMQVTC 235
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
+++R + R SLN G S + D + +P +++ ++ +
Sbjct: 236 EQLRYLQQV--------RRQSLSLNHRIGSEESSELLDVLEDNATQSPEAQMNEMMMRQD 287
Query: 438 VNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+ +++ L ERE+EI+ + YG L E T E++S LSRERVRQ+ A+ KL+
Sbjct: 288 ILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRRPQ 347
Query: 497 RKKKMEAML 505
++++ L
Sbjct: 348 VTERLKGWL 356
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/312 (35%), Positives = 179/312 (57%), Gaps = 9/312 (2%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL E V L+++++ + L K L+ LG E S EQ A + ++ EL
Sbjct: 54 YLQEIGRVPLLGRDEEVELAQQVQKLMKLTALKESLQTSLGSEYSDEQWAEAAKVGLFEL 113
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ S A++K++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 114 KRQVLAGSRAKKKMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 173
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ + +L + G TP++ IAE
Sbjct: 174 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKTQRKLSQNLGRTPTISEIAE 233
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L M VR + + SL+ G +T + E +P +L
Sbjct: 234 ELEMEPAHVRELMSRVPRSVSLETRV-----GKDKDTELGELL-EAEEVSPEESAVQESL 287
Query: 435 KDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+ +V +L+ L RER++I + YG LD + +I + + LSRERVRQ+ AL+KL+
Sbjct: 288 RRDVKELLD-DLTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQIESKALQKLR 346
Query: 494 HAARKKKMEAML 505
R+ K+ L
Sbjct: 347 QPRRRAKVRDYL 358
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 115/320 (35%), Positives = 181/320 (56%), Gaps = 34/320 (10%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-CEPSMEQLAASLRIS 251
++ Y+ G+ +LLT A+ V LSK+I+ GL + E+L C P +L A L +
Sbjct: 31 VRAYLNGIGRTKLLTAAQEVELSKRIEAGLFAE-------EKLATCTPVSAELHADLAL- 82
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
I E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD
Sbjct: 83 ------IAAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDY 136
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPS 368
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ R ++R E G P+
Sbjct: 137 TKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVN--RMVRVRRELSVTLGREPT 194
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
V +A L + + +V ++ S DRE SL+ GE S + D +P
Sbjct: 195 VSEVATALEIPEFQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPRTE 246
Query: 429 VDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 483
D A L++EV ++++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ
Sbjct: 247 PGDAATNGELRNEV-RIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQ 305
Query: 484 VGLVALEKLKHAARKKKMEA 503
+ V L KL+ R ++EA
Sbjct: 306 IEKVTLLKLRDPERANRLEA 325
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/316 (35%), Positives = 180/316 (56%), Gaps = 17/316 (5%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
++ ++ Y++ + LL E + L++KI L L+ + L E+L EP + A +
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 196
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 366
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 197 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 256
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN- 424
P+ + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 257 PTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDG 306
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 481
P V L++++ + ++ +LG RER+++RL YGLD + T E+I + ++RER+
Sbjct: 307 ETPEDQVSKSLLREDLER-VLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERI 365
Query: 482 RQVGLVALEKLKHAAR 497
RQ+ AL KL+H R
Sbjct: 366 RQIEAKALRKLRHPNR 381
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 179/314 (57%), Gaps = 35/314 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRP----------------------EL 255
+ T L L + RL LGC P+M + AA + + R E+
Sbjct: 88 LATFLKLIEVHDRLAIELGCRPTMGRWAAEVDLDREVLRQKIREGKQHWAACVDLDIKEI 147
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++L + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R ++KFD +KG+
Sbjct: 148 EAVLKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVDKFDPTKGY 207
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + +G TPS++ +A+
Sbjct: 208 RFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQTQGCTPSLEDVAK 267
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
LNM+ +VR + + + SL+ G+ + + D + +P +
Sbjct: 268 VLNMTAAQVREVLQKVPRSVSLEIRV--------GQDRDTELGDLLETKDASPEENLVRE 319
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L+ ++ L + L +RE+E+I+L YGLD + + +I + + LSRERVRQ+ AL+K
Sbjct: 320 SLQRDLRNL-LAELTDREQEVIQLRYGLDDGKTHSLAEIGRVLELSRERVRQIEAKALQK 378
Query: 492 LKHAARKKKMEAML 505
L+ R+ M L
Sbjct: 379 LRQPKRRNLMRDYL 392
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/316 (35%), Positives = 180/316 (56%), Gaps = 17/316 (5%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
++ ++ Y++ + LL E + L++KI L L+ + L E+L EP + A +
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R E
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 196
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVT 366
KFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 197 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 256
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN- 424
P+ + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 257 PTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDG 306
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERV 481
P V L++++ + ++ +LG RER+++RL YGLD + T E+I + ++RER+
Sbjct: 307 ETPEDQVSKSLLREDLER-VLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERI 365
Query: 482 RQVGLVALEKLKHAAR 497
RQ+ AL KL+H R
Sbjct: 366 RQIEAKALRKLRHPNR 381
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL ERL +P + AA +
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLELERARERLCERLERDPRDSEWAAEVS 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 LPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 109/317 (34%), Positives = 183/317 (57%), Gaps = 24/317 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL AE + L+++I T LSL++ + + + + E +E S ++ +
Sbjct: 45 YLQEIGRVALLKPAEEIELARRIATWLSLEEKRSKFQA-VAAESWLE----SANLTPQQW 99
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+I+ E A+ LV +N+RLV+S+A++Y G + DL+Q G +GL+R EKFD ++GF
Sbjct: 100 STIVREGERAKAHLVKANLRLVVSVAKKYQGRGLHLLDLIQEGTLGLIRAAEKFDYTRGF 159
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQG++RA+ +RT+RLP H+ E++ I+ A +L ++ G +PS D IA+
Sbjct: 160 KFSTYATWWIRQGITRAIAMQARTIRLPVHIVEKVNRIKKATRQLSQQLGRSPSEDEIAQ 219
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
+ M ++R +AI SL+ G + + D N P HGV
Sbjct: 220 AVEMDADQLRFVRKAIQLPVSLETPV--------GREEDTALGDLIQAKGNEPEHGV--- 268
Query: 433 ALKDEVNK---LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
++D +N+ ++ TL RER+++RL YGL D T +++ ++ GL+RER+RQ+ A
Sbjct: 269 -VRDLMNQDLESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQQFGLTRERIRQIEARA 327
Query: 489 LEKLKHAARKKKMEAML 505
L KL+H R +++ L
Sbjct: 328 LRKLRHPQRLQRVREYL 344
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 115/326 (35%), Positives = 187/326 (57%), Gaps = 22/326 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE--RLG--CEPSMEQL 244
I + ++ Y+K + LLT E V L++K++ GL D+ L+E R G E M L
Sbjct: 301 IDDPVRMYLKEIGKVHLLTAEEEVDLAQKMEKGLKADEQIEILREEIRSGDLSEEDMMNL 360
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A ++I L++ A++KL +N+RLV+SIA+RY G DL+Q G +GL++
Sbjct: 361 EAQIKI----LKNDSAVGERAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 416
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E
Sbjct: 417 AVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 476
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G PS + IA + + +VR ++ + +E SL GE S++ D +
Sbjct: 477 GREPSPEEIAREMETTPDRVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDE 528
Query: 424 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
N P LK+++N+ ++ TL ERER+++ L +GL D T E++ K ++RE
Sbjct: 529 NAPVPAEAATFTLLKEQLNE-VLDTLTERERKVLILRFGLEDGRGRTLEEVGKEFNVTRE 587
Query: 480 RVRQVGLVALEKLKHAARKKKMEAML 505
R+RQ+ AL KL+H +R +K++ L
Sbjct: 588 RIRQIEAKALRKLRHPSRSRKLKDYL 613
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+++ A
Sbjct: 107 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLAD 166
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 167 MPLARFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 226
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 227 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 286
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 287 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 336
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 337 PEQDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 395
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 396 IEAKALRKLRHPNR 409
>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 = 172 bits (437), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 104/304 (34%), Positives = 180/304 (59%), Gaps = 7/304 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
++K + LL +E + L++++K + L + K +L +LG ++ ++AA++ ++ +
Sbjct: 64 AFLKDMARYPLLQPSEEIELARRVKYLVELSELKDQLGRQLGRSATLPEVAAAMNLTEQQ 123
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
LQ + +A+ K++ SN+RLV+SIA+RY N G DLVQ G +GL R EKFD KG
Sbjct: 124 LQIRIYRGQVAKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRATEKFDPEKG 183
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
FK STY YWWIRQG++RA+ +SRT+RLP H+ E+L ++ + L +E P+ +A
Sbjct: 184 FKFSTYAYWWIRQGITRAIANDSRTIRLPIHIVEKLNKLKKLQRHLKKELQRNPTEQELA 243
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ L ++ ++++ A + SL+R G +T + + +P + +
Sbjct: 244 DALEITLEQLQMLQRARQQALSLNRRV-----GREEDTELLDLLEADSTQSPEKQMGEVM 298
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+++L+ + L ++ER++I L YGL E T E++S LSRERVRQ+ A+ KL
Sbjct: 299 MRQEISQLLDLVLTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQIQNKAIGKL 358
Query: 493 KHAA 496
+ +A
Sbjct: 359 RRSA 362
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 185/318 (58%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+LG P ++ A
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLGSTPDLDSRLAL----- 114
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L ++++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 115 -DLDTLVVRGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 173
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS +
Sbjct: 174 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPSAEE 233
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L++S ++V G+V L +E SL+ GE + D + + V+
Sbjct: 234 VAAQLDLSPERV-------GEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDATSPVES 285
Query: 432 WA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L++ ++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 286 AAFLLLREHLDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 344
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 345 TLNKLRDHAYADQLRGYL 362
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 107/310 (34%), Positives = 177/310 (57%), Gaps = 9/310 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 83 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 142
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 143 MPLPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 202
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 203 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 262
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 263 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 316
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 317 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 375
Query: 488 ALEKLKHAAR 497
AL KL+H R
Sbjct: 376 ALRKLRHPNR 385
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 110/316 (34%), Positives = 189/316 (59%), Gaps = 21/316 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E V S++++ ++L+ K L E+ EPS+++ A + +S+
Sbjct: 11 VRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANLSQ 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ L+ A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RELKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + G + S+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ K+VR+ E + SLD G+ + + + + + + DD
Sbjct: 191 LADELGLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTELIE--LLEDDGLTPDD 240
Query: 432 W----ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ ALK ++ ++ + L +++E++ L +GL D T I + + +SRERVRQ+
Sbjct: 241 YATHAALKRDLARM-LNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLSISRERVRQIER 299
Query: 487 VALEKLKHAARKKKME 502
AL KL RK+K E
Sbjct: 300 EALAKL----RKRKAE 311
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+++ A
Sbjct: 107 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLAD 166
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 167 MPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 226
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 227 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 286
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 287 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 336
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 337 PEQDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 395
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 396 IEAKALRKLRHPNR 409
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 183/320 (57%), Gaps = 19/320 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ +L + K L LG +P+ + A + +S
Sbjct: 12 VRAYLREIGRVPLLTHEQEILYGKQVQRTTALHEAKNALALELGRDPTRTEWAEAAGLSE 71
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
ELQ + A+ +V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 72 TELQRTIHAGERAKRMMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 131
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ L +K G + +
Sbjct: 132 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQKLGRAATANE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWHGVD 430
+A L ++ K++R L+R P SL+ G+ + + D + + +
Sbjct: 192 LAAELELTPKQIRE---------YLERARLPLSLDLRVGDNQDTELGD--LLEDTGASPE 240
Query: 431 DWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D+AL+ + ++++ L +++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 DFALQASLRADLEMLMADLTQQQREVLALRFGLEDGQTLTLSKIGDRLNISRERVRQIER 300
Query: 487 VALEKLKHAARKKKMEAMLV 506
AL KL+ RK+ M+ L
Sbjct: 301 EALTKLRK--RKQDMDDYLA 318
>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 = 172 bits (436), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 140 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEWAALVE 199
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 200 MPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 259
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 260 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 319
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 320 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 369
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 370 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 428
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 429 IEAKALRKLRHPNR 442
>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 = 172 bits (436), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 140 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEWAALVE 199
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 200 MPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 259
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 260 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 319
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 320 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 369
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 370 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 428
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 429 IEAKALRKLRHPNR 442
>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 = 172 bits (436), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 113/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L EP + A +
Sbjct: 62 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLEREPGDREWATEVD 121
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 122 MELPAFRYRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 181
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 182 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 241
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA+ + M+ +K+R F P SL G+ S + D +E +
Sbjct: 242 EEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 291
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 292 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 350
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 351 IEAKALRKLRHPNR 364
>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 = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 116/355 (32%), Positives = 195/355 (54%), Gaps = 8/355 (2%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVR 213
+ RR + +K ++ S + S++ R+ + + L+ + LLT E +
Sbjct: 231 KARRTRAAEKTVTSVLSFKSGSSSRKKRNSVQEVDYSDPLRYLRATTNTSRLLTATEELE 290
Query: 214 LSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSN 273
LS+ I+ L L+ + L ER G EP+ Q AA+ +++ L+ L +L ++K++ SN
Sbjct: 291 LSEGIQDLLKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDKMIKSN 350
Query: 274 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKGFK STY +WWI+Q V + L
Sbjct: 351 IRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFL 410
Query: 334 VENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 392
+ SRT+RLP H+ E ++ A+ + L E G P IAE +S K++
Sbjct: 411 SDQSRTIRLPFHMVEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAVLMTPKA 470
Query: 393 VFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
SL+++ + N P E I+D E + + +K ++ K ++ +L RE++
Sbjct: 471 PRSLEQKIGINQNLKPSEV----ISDPEAETCEDMLIKQF-MKQDLEK-VLDSLNPREKQ 524
Query: 453 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
+IR +G+ D T ++I + +G+SRER+RQ+ A KLK+ R K ++ ++
Sbjct: 525 VIRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFRKLKNKKRTKHLQQYVM 579
>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 = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 160 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGREPDKKEWAALVE 219
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 220 MPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 279
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 280 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 339
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 340 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 389
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 390 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 448
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 449 IEAKALRKLRHPNR 462
>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 = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 111/318 (34%), Positives = 181/318 (56%), Gaps = 30/318 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-CEPSMEQLAASLRIS 251
++ Y+ G+ +LLT + V L+K+I+ GL + E+L C P L
Sbjct: 37 VRAYLNGIGRTKLLTAEQEVELAKRIEAGLFAE-------EKLATCTPVSTVL------- 82
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
R +L+ I+ E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD
Sbjct: 83 RADLEIIVAEGRTAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDY 142
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L G P+V
Sbjct: 143 TKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRELAVTLGREPTVA 202
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPW 426
+A +++ + +V ++ S DRE SL+ GE S ++A P
Sbjct: 203 EVARAMDVPEFQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPAAEPG 254
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 485
D L++EV ++++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+
Sbjct: 255 ATAVDGELRNEV-RIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIE 313
Query: 486 LVALEKLKHAARKKKMEA 503
V L KL+ R +++EA
Sbjct: 314 KVTLLKLRAPERAQRLEA 331
>gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana]
Length = 574
Score = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 113/340 (33%), Positives = 192/340 (56%), Gaps = 11/340 (3%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE---ELLTHAEVVRLSKKIKTGLSLDDHK 228
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLKLLTVREEHELSAGIQDLLKLERLQ 297
Query: 229 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
L ER G +P+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G
Sbjct: 298 TELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAG 357
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 MNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVE 417
Query: 349 RLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL 407
++ A+ +L E G P + IAE +S K++ + SLDR+ + N
Sbjct: 418 ATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDRKIGMNQNLK 477
Query: 408 PGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLT 466
P E IAD + + ++ ++ +++K ++ +LG RE+++IR +G+ D T
Sbjct: 478 PSEV----IADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKT 531
Query: 467 WEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
++I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 532 LQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 571
>gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 317
Score = 172 bits (435), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 106/311 (34%), Positives = 187/311 (60%), Gaps = 16/311 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E V S++++ ++L+ K L E+ EPS+++ A + +S+
Sbjct: 11 VRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANLSQ 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L+ A++K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 RQLKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L + G + S+
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEQSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASIPE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
+A+ L ++ K+VR+ E + SLD G+ + + + + +E++ P
Sbjct: 191 LADELGLTTKQVRDYLEKSRQPLSLDLRV--------GDNNDTELIE--LEDDGELPDDY 240
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
ALK ++ ++ + L +++E++ L +GL D T I + + +SRERVRQ+
Sbjct: 241 ATHAALKRDLARM-LNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVRQIEHG 299
Query: 488 ALEKLKHAARK 498
+L KL+ RK
Sbjct: 300 SLAKLRKQKRK 310
>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 (435), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 112/321 (34%), Positives = 184/321 (57%), Gaps = 32/321 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT E V L+K+I+ GL + E+LAA+ R +
Sbjct: 95 VRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAAATRKTS 138
Query: 253 P----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EK
Sbjct: 139 PQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEK 198
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KG+K STY WWIRQ V+RA+ + +RT+R+P H+ E + LIR + L++ G P
Sbjct: 199 FDYTKGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREP 258
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
S + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 259 SPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVV 310
Query: 428 GVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 311 PVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQI 370
Query: 485 GLVALEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 371 ESKTLSKLRHPSRSQKLRDYL 391
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 108/309 (34%), Positives = 184/309 (59%), Gaps = 11/309 (3%)
Query: 189 IQNR--LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAA 246
IQN ++ Y+K + LLTH E + L K+++ L+ + L E L P+ + AA
Sbjct: 4 IQNTDLVRTYLKEIGRVPLLTHEEEIVLGKQVQHLSLLEKRREALTEELDRTPTQAEWAA 63
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
++ +S +L +I+ A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+
Sbjct: 64 AVNLSEGQLLTIVRAGDTAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGV 123
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GV 365
EKFD +KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L ++ G
Sbjct: 124 EKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQYGR 183
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 425
+V +A L ++ K+VR+ E + SLD G +T S + ++ +P
Sbjct: 184 AATVMELAAELELTPKQVRDYLEKARQPLSLDLRV-----GDNQDTELSELLEDE-GPSP 237
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
AL+ ++++L + L ++++++RL +GL D + LT I + + +SRERVRQ+
Sbjct: 238 EEFATQAALRRDLDRL-MGDLTPQQQQVLRLRFGLTDGQTLTLAKIGEMLSISRERVRQI 296
Query: 485 GLVALEKLK 493
AL KL+
Sbjct: 297 EREALTKLR 305
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + R+ +RL PS + A +
Sbjct: 61 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERMADRLERYPSDAEWAEEVN 120
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 121 MRLPEFRRRLFYGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 180
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 181 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 240
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 241 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 290
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 291 PEDQVSKSLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 349
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 350 IEAKALRKLRHPNR 363
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/327 (33%), Positives = 187/327 (57%), Gaps = 9/327 (2%)
Query: 183 MISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+++ E+ N Y++ S +LLT E LS I+ L L+ + L ER G +P+
Sbjct: 249 LVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERCGRQPTF 308
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G ++ DLVQ G G
Sbjct: 309 AQWASAAGVDQKSLRKRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRG 368
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL- 360
L+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E ++ A+ +L
Sbjct: 369 LVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLY 428
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
E G P + IAE +S K++ + SLD++ + N P E IAD
Sbjct: 429 SETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPSEV----IADPE 484
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+ + ++ ++ +++K ++ +LG RE+++IR +G+ D T ++I + +G+SRE
Sbjct: 485 AVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRE 542
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLV 506
RVRQ+ A KLK+ R ++ LV
Sbjct: 543 RVRQIESSAFRKLKNKKRSNHLQQYLV 569
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 115/319 (36%), Positives = 181/319 (56%), Gaps = 20/319 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+ + ++ Y++ + LLT AE V L+KK++ + +D L+ + M L S
Sbjct: 85 LDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQ-------DDGM--LEHSD 135
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
RIS L+ + AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EK
Sbjct: 136 RIS---LKRHIDTGRAARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEK 192
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTP 367
FD +KG K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P
Sbjct: 193 FDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREP 252
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ + IAE + ++ KVR EA SL+ G G+ +I D+RV + P
Sbjct: 253 TPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRV-STPVD 307
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
L++++ + ++ L ERER+II+L YGL D T E++ G++RER+RQ+
Sbjct: 308 AAAMTMLREQIEE-VLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEA 366
Query: 487 VALEKLKHAARKKKMEAML 505
VAL KL+H KK+ L
Sbjct: 367 VALRKLRHPHLGKKLRGYL 385
>gi|414878913|tpg|DAA56044.1| TPA: hypothetical protein ZEAMMB73_174714 [Zea mays]
gi|414878914|tpg|DAA56045.1| TPA: hypothetical protein ZEAMMB73_174714 [Zea mays]
gi|414878915|tpg|DAA56046.1| TPA: hypothetical protein ZEAMMB73_174714 [Zea mays]
Length = 287
Score = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 125/300 (41%), Positives = 182/300 (60%), Gaps = 20/300 (6%)
Query: 1 MMATAAVIGLSAGKRLLSSSFYYSDISEKFSYIN-DLGSANSQVGSTKNVVAAKKSSNYN 59
M AT AVIGLSAG RLL++SF ++++ +Y + +A ++ + +A SS N
Sbjct: 1 MTATPAVIGLSAGNRLLATSFGSAELASPDAYPSRQFAAAAPKLTVVAHRASASASSPAN 60
Query: 60 PSFPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESS-ELDYSVEALLLLQKSM 118
R I+AL+ H A + E +S E + S+EA++LLQ+SM
Sbjct: 61 IGGAGHAR-AHAIRALRNHSAPALAPPPPADP----APELDSKFEFESSLEAIVLLQRSM 115
Query: 119 LEKQWNLSFERTVL-TDSPSKKTHKKVPVTCSGVSARQRRLNSKKK-ILSQNKSILQQNG 176
LEKQW L FE + T+ + V V SGVSARQRR++ +++ + KS+
Sbjct: 116 LEKQWELPFEDDISSTEDEDEDERSTVVVARSGVSARQRRMSGRRRGAVVGRKSV----- 170
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
+SPEL+Q+R + Y++G VS++LLTH +VV+LS+KIK G+ L + +LKE+LG
Sbjct: 171 ------TVSPELMQSRNRIYLRGTVSKDLLTHKQVVQLSRKIKDGIWLQHQRSKLKEKLG 224
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EPS +QLA SLRI PEL++ + E LARE L MSN RLV+SIAQ+YDN+G ++ DL+Q
Sbjct: 225 NEPSYKQLAQSLRIPAPELRARMRESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLIQ 284
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 183/314 (58%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + + L+E+LG +P+ Q+AA L ++ +
Sbjct: 69 AFFKEMARYPLLKADEEVELARRVRFLEEVREIQAALQEQLGQQPTKVQVAAQLDLTEKQ 128
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 129 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 188
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K G PS +A
Sbjct: 189 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLGHNPSEAEMA 248
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 249 AFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 303
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 304 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 363
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 364 RRPHIAKRLKGWLI 377
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L +RL EP + A +++
Sbjct: 81 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSDRLDREPQDSEWAEAVK 140
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 141 QNLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 200
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 201 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 260
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 261 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 310
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 311 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 369
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 370 IEAKALRKLRHPNR 383
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 106/323 (32%), Positives = 185/323 (57%), Gaps = 11/323 (3%)
Query: 178 KQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC 237
K+L+ M +P + ++ Y++ + +LL+ +E V LS+KI+ L L+ + L+ +G
Sbjct: 259 KKLQIMRTP---SDPIRSYLRDIKRTKLLSASEEVALSRKIQDILKLEKIRAELQRDIGR 315
Query: 238 EPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 297
EP++ + + ++ + + L+ + E A++KLV SN+RLV+SI + Y G + DL+Q
Sbjct: 316 EPTLSEWSQAVSLDQTSLELRVKEGRSAKDKLVNSNLRLVVSIVKNYQGRGMTLPDLIQE 375
Query: 298 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK 357
G +GL+RG EKFD G+K STY WWIRQ V+RA+ + SR +RLP H++E + I AK
Sbjct: 376 GSLGLIRGAEKFDPEMGYKFSTYATWWIRQAVTRAIADQSRIIRLPVHIYEVISRINKAK 435
Query: 358 LRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 416
+ + +E G P + +A + MS +K+ ++ S+DR G GE +
Sbjct: 436 MTISQELGRQPRDEEVAAMVGMSVEKLLFIVKSARPPTSMDRPI-----GKDGEQSLGEM 490
Query: 417 ADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIG 475
++ +P + LK ++ ++ +L ERE++RL +GL + +T +D+
Sbjct: 491 VADKGVGSPEDDIMTQVLKQDIED-VLRSLNPMEREVLRLRFGLSGAQSMTLKDLGIIFK 549
Query: 476 LSRERVRQVGLVALEKLKHAARK 498
++RER+RQ+ AL KL+H + K
Sbjct: 550 VTRERIRQIEAKALRKLRHPSWK 572
>gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 398
Score = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 102/300 (34%), Positives = 170/300 (56%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRP----------------------ELQSILMECSLARE 267
RL LGC PS+ + A + + R EL SIL + A+E
Sbjct: 102 RLAIELGCRPSLNRWAQEMNLERAVLRDIIRQGKQRWAEQVGLSVKELDSILKAGAKAKE 161
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R ++KFD +KG++ STY YWWIRQ
Sbjct: 162 HMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQ 221
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNA 386
G++R SRT+RLP H+ E+L I+ A+ ++ + +G TPS+D +A+ L M+ ++VR
Sbjct: 222 GITRGDRTQSRTIRLPVHVTEKLNKIKKAQRQISQTQGCTPSLDDVAQALEMTPEQVREV 281
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + + SL+ + G+ + A +P + +L+ +++ L + L
Sbjct: 282 LQKVPRSVSLEIRVGKDRDTELGDLLETQDA------SPEENLVRESLQRDLHNL-LTEL 334
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RERE+I+L YGL D + + +I + + +SRERVRQ+ AL+KL+ R+ M L
Sbjct: 335 TDREREVIQLRYGLGDGKTYSLAEIGRMLDVSRERVRQIEAKALQKLRQPKRRNIMRDYL 394
>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 = 172 bits (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQ 137
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>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 = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 104/310 (33%), Positives = 173/310 (55%), Gaps = 10/310 (3%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E + L+++++ + ++D+ + E L P+ +LA + + +
Sbjct: 159 AFFKEMARYPLLQPTEEIELARQVRIIVEIEDYSEKASETLKRRPTHAELATAFGYTEGQ 218
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L + A+ +++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 219 LRQKLRQARAAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKG 278
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ A+ L +E TP+ +A
Sbjct: 279 YKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRKELQRTPTEVEVA 338
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L M+ +++R + K SL+ G +T + ++ +P + +
Sbjct: 339 AALEMTPEQLRTLQQVQRKSLSLNHRV-----GKGEDTELMELLEDGNSLSPESQISESM 393
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E++ ++ L ERE+EII L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 394 MRQEISDVLTEVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKAMRKL 453
Query: 493 KH---AARKK 499
+ AAR K
Sbjct: 454 RRPQVAARLK 463
>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 = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 184/305 (60%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + K+++ +SL K L E L EP++E+ A + +
Sbjct: 20 VRTYLQEIGKVPLLSHEQEIVFGKQVQIMMSLYAQKEELAENLDREPTLEEWAQAAEKTP 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ ++ + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 AELKKLIHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KGFK STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G +P+
Sbjct: 140 KGFKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSPNQSE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IA L++ ++R + FS+ R+ SL+ G+ + +++ + +P +
Sbjct: 200 IANALDLEPSQIR-------EYFSIARQPI-SLDVKVGDNQDTELSELLEDEGLSPDKYI 251
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
++ +++KL + L +++E++RL +GLD + L+ I +R+G+SRERVRQ+ A
Sbjct: 252 TQELMRQDLHKL-LDELTTQQQEVVRLRFGLDDGKELSLAKIGQRMGISRERVRQLEQQA 310
Query: 489 LEKLK 493
L L+
Sbjct: 311 LAHLR 315
>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 = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQ 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 171 bits (434), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 101/291 (34%), Positives = 170/291 (58%), Gaps = 9/291 (3%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LLTH + + +K+++ + + K L E+L EP+ ++ A +++ L L + +
Sbjct: 37 LLTHEQEIFFAKQVQQMMVMLTAKEELSEKLQREPTRQEWADKMQLEEDMLLQQLSQGQI 96
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+K STY YWW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNIEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G T V IA+ LN+ +++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKRVQRELSQKLGHTADVTEIAQALNLEPRQI 216
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R + + SLD + G + D+ + +P + L +V+KL +
Sbjct: 217 RECLQFARQPVSLDM----GIGSEQGTQLQDMLKDDGM--SPERYTERELLYQDVHKL-L 269
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLK 493
L +++E++ L +GL C LT IS+RIG+ RERVRQ+ AL L+
Sbjct: 270 AKLTPQQKEVLILRFGLAGGCELTLVQISQRIGICRERVRQLEKQALTLLR 320
>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 = 171 bits (434), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 116/331 (35%), Positives = 185/331 (55%), Gaps = 20/331 (6%)
Query: 176 GSKQLRSM-ISPELI--QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK 232
G+K L S+ + P+ + ++ ++ Y++ + LL E + L++KI L L++ +
Sbjct: 104 GAKALASIKVGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEEKAAEFE 163
Query: 233 ERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 292
G P ++ AA + + + LM A+EK+V+SN+RLV+SIA++Y N G
Sbjct: 164 ADKGHFPDTKEWAAIFDMPLIKFRRRLMLGRRAKEKMVLSNLRLVVSIAKKYMNRGLSFQ 223
Query: 293 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGL 352
DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E +
Sbjct: 224 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISR 283
Query: 353 IRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGE 410
I+ L +E G P+ + IAE + M+ +K+R F P SL G+
Sbjct: 284 IKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGK 334
Query: 411 THHSYIADNRVE---NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-T 466
S + D +E NP V L++++ ++ TL RER+++RL YGLD + T
Sbjct: 335 EEDSRLGDF-IEADIENPEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKT 392
Query: 467 WEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
E+I + ++RER+RQ+ AL KL+H R
Sbjct: 393 LEEIGQIFDVTRERIRQIEAKALRKLRHPNR 423
>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 = 171 bits (434), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + R G P ++ AA +
Sbjct: 149 EDSIRVYLQEIGRIRLLRPDEEIELARKISDLLYLEELAGQFEGRKGYYPDNKEWAALVE 208
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+S + + LM A+ K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 209 MSLIKFRRRLMLGRRAKAKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 268
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 269 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 328
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 329 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 378
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 379 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 437
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 438 IEAKALRKLRHPNR 451
>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 = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 107/303 (35%), Positives = 182/303 (60%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT E + L+K+I+ ++L+ + LK++L EPS ++ A + +IS
Sbjct: 11 IRVYLKEIGRIPLLTKEEEIVLAKQIQELVALEKKRETLKKKLEREPSKKEWAEAAKISE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L + A+ K+V +N+RLV+SIA++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 71 KNLDIKISRGEKAKRKMVEANLRLVVSIAKKYLKHNLDLLDLIQEGTIGMQRGVEKFDPK 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SR +RLP H+ E+L IR + +L EEKG ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
++E L ++ ++VR+ + SLD + G +T + +++ + +P D
Sbjct: 191 LSEALELTTEQVRDYLGKARQPLSLDLKV-----GDNNDTELGELLEDKGQ-SPEDFTDY 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
L+ ++ ++ + L ++++++IRL YGLD + LT I + +SRERVRQ+ AL
Sbjct: 245 SCLQFDLRRM-MSDLTQQQQDVIRLRYGLDDGKPLTLSKIGTILNISRERVRQIEREALT 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 147 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEWAALVE 206
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 207 MPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 266
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 267 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 326
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 327 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 376
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 377 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 435
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 436 IEAKALRKLRHPNR 449
>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 = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 113/319 (35%), Positives = 181/319 (56%), Gaps = 22/319 (6%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-----EPSMEQL 244
++ ++ Y++ + LL E + L++KI L ++ + RL + LGC E + E
Sbjct: 102 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLEMERVRDRLCQELGCTAEELERNPEPW 161
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A L ++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 162 AKELGMTVPAFRHRLFVGRKAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 221
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEK 363
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E
Sbjct: 222 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEM 281
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 422
G P+ + IA+ + M+ +K+R F P SL G+ S + D +E
Sbjct: 282 GRKPTEEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IE 331
Query: 423 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 478
++ P V L++++ + ++ TL RER++++L YGLD + T E+I + ++R
Sbjct: 332 SDGETPEDQVSKHLLREDL-ETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTR 390
Query: 479 ERVRQVGLVALEKLKHAAR 497
ER+RQ+ AL KL+H R
Sbjct: 391 ERIRQIEAKALRKLRHPNR 409
>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 = 171 bits (433), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 112/338 (33%), Positives = 192/338 (56%), Gaps = 9/338 (2%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLR 230
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTE 297
Query: 231 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
L ER G +P+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G +
Sbjct: 298 LTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMN 357
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 LQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEAT 417
Query: 351 GLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
++ A+ +L E G P + IAE +S K++ + SLD++ + N P
Sbjct: 418 YRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPS 477
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWE 468
E IAD + + ++ ++ +++K ++ +LG RE+++IR +G+ D T +
Sbjct: 478 EV----IADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIRWRFGMEDGRMKTLQ 531
Query: 469 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
+I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 532 EIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis
thaliana]
Length = 572
Score = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 119/356 (33%), Positives = 197/356 (55%), Gaps = 10/356 (2%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVV 212
+ RR +K S S+ + K+ R +++ E+ N Y++ S +LLT E
Sbjct: 221 KARRAKGLEKTASGIPSVKTGSSPKKKR-LVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 213 RLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMS 272
LS I+ L L+ + L ER G +P+ Q A++ + + L+ + +L ++K++ S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 273 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 332
N+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKS 399
Query: 333 LVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 391
L + SR +RLP H+ E ++ A+ +L E G P + IAE +S K++ +
Sbjct: 400 LSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPK 459
Query: 392 KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERER 451
SLD++ + N P E IAD P + ++ +++K ++ +LG RE+
Sbjct: 460 PPRSLDQKIGMNQNLKPSEV----IADPEAV-TPEDILIKEFMRQDLDK-VLDSLGTREK 513
Query: 452 EIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
++IR +G+ D T ++I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 514 QVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>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 = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 109/317 (34%), Positives = 176/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L + L P+ + AAS+
Sbjct: 65 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELEQKREKLWQELKRIPNDREWAASVE 124
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 125 MELPAFRRRLYLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 184
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 185 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPT 244
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA ++ M+ +K+R ++ SL+ +E L GET ++ N +
Sbjct: 245 EEEIATHMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDDVSKNLL 304
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ H +D +L RER+++RL YGLD + T E+I + ++RER
Sbjct: 305 REDLEHVLD--------------SLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRER 350
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 351 IRQIEAKALRKLRHPNR 367
>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 = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 106/314 (33%), Positives = 179/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+K+++ + D + L+ LG +P+ Q+A I+ +
Sbjct: 80 AFFKEMARYPLLKPDEEVELAKRVRFLEDVKDLQEALELELGQQPTKAQIADKFEITEKQ 139
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 140 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 199
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS IA
Sbjct: 200 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEIA 259
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E+L MS +++R + + SL+ G +T + ++ +P +++
Sbjct: 260 EFLEMSVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 314
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 315 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 374
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 375 RRPHIAKRLKGWLI 388
>gi|158335492|ref|YP_001516664.1| RNA polymerase sigma factor [Acaryochloris marina MBIC11017]
gi|158305733|gb|ABW27350.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 327
Score = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 104/321 (32%), Positives = 188/321 (58%), Gaps = 15/321 (4%)
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
+KQ +SP + ++ Y+ + LLTH E + K+++ ++L D + + + LG
Sbjct: 6 TKQQAISVSP--TTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELG 63
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EPS+E+ A +S +L+ L + A++K++ +N+RLV+S+A++Y ++ DL+Q
Sbjct: 64 REPSLEEWAEKANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQ 123
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 356
G +GL RG+EKFD ++G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ A
Sbjct: 124 EGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKA 183
Query: 357 KLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
+ L +K G + + IAE L + ++R+ + SLD G+ +
Sbjct: 184 QRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRV--------GDNQDTE 235
Query: 416 IADNRVEN--NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISK 472
+ D ++ +P AL+D+VN+L + L ++R+++ L +GL+ + L+ + +
Sbjct: 236 LRDLLEDDGQSPEQFTTTEALRDDVNQL-LKELTPQQRDVLMLRFGLNNGKELSLAKVGQ 294
Query: 473 RIGLSRERVRQVGLVALEKLK 493
++ LSRERVRQ+ AL+ L+
Sbjct: 295 QLSLSRERVRQLERQALDYLR 315
>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 = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 183/307 (59%), Gaps = 8/307 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + +LLT E V LS +I+ L L++ K L+ +G ++ + + ++ + +
Sbjct: 264 VRAYLRDIGRTKLLTAREEVDLSHQIQDLLKLENIKSNLEREIGRNATIGEWSRAVGMEQ 323
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
++ L + A++K+V SN+RLV+SIA+ Y G + DL+Q G +GL+RG EKFD +
Sbjct: 324 NAFEARLKKGRFAKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPT 383
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAK-LRLEEKGVTPSVDR 371
KGFK STY +WWIRQ V+R++ + SRT+RLP HL+E + I AK + ++E G +
Sbjct: 384 KGFKFSTYAHWWIRQAVTRSIADQSRTIRLPIHLYEVISRINKAKRMLVQEHGREARNEE 443
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE + ++ +K+++ ++ S++R + GE +AD V ++P +
Sbjct: 444 VAELVGLTVEKLKSVVKSAKAPGSMERPIGKDGDTTLGE----LVADTDV-DSPEDAIVK 498
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
++ ++ ++ TL RERE++RL +GLD T E+I + ++RER+RQ+ A+
Sbjct: 499 QLMRQDIEG-VLRTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKVTRERIRQIEAKAMR 557
Query: 491 KLKHAAR 497
KL+ +R
Sbjct: 558 KLRQPSR 564
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 100/301 (33%), Positives = 177/301 (58%), Gaps = 9/301 (2%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA-ASLRISRPE 254
Y++ + LLTH + + K+++ ++L K L ++LG EPS+++ A AS ++ +
Sbjct: 18 YLREIGRVPLLTHEQEILFGKQVQRSIALQLVKDSLTKQLGREPSLDEWAKASGKLDNTQ 77
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L + + A+ K+V +N+RLV+SIA++Y ++ DL+Q G IGL RG+EKFD +KG
Sbjct: 78 LTQAIADGESAKRKIVEANLRLVVSIAKKYTKRNLELLDLIQEGTIGLHRGVEKFDPTKG 137
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+++STY YWWIRQ ++RA+ +NSR +RLP H+ E+L I+ + +L + TPS+ +A
Sbjct: 138 YRLSTYAYWWIRQAITRAIAQNSRNIRLPIHVTEKLNKIKKTQRQLSQHLKRTPSISELA 197
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L ++ +V + E + SL+++ + GE A +P +
Sbjct: 198 AALELTPNQVISYLEVARQPISLEKQVGEDRDTELGEMLQDPAA------SPEEFAIQSS 251
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
L D + +++ L ++++++ L +GL D L+ ++I +R+ SRERVRQ+ AL KL
Sbjct: 252 LSDNLKQVMAAVLTLQQQQVLSLRFGLEDGRALSLKNIGERLNFSRERVRQIQQEALAKL 311
Query: 493 K 493
+
Sbjct: 312 R 312
>gi|427712306|ref|YP_007060930.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
gi|427376435|gb|AFY60387.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
Length = 318
Score = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 178/303 (58%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ SL++ + L+ LG EPS+E+ A+ +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEILYGKQVQMLASLNETRTGLETALGREPSLEEWASQANLSP 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL I+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 GELNEIIQGGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L + G +++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQSLGRAATINE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L ++ +VR E + SLD + + GE + D + +P
Sbjct: 191 LAVELELTPAQVREYLERARQPLSLDVRVGDNQDTELGE----LLEDPSL--SPEEFTSQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
AL+ ++++L + L ++R++I L +GL D + LT + + +SRERVRQ+ AL
Sbjct: 245 SALRADLDRL-MADLTPQQRQVIALRFGLEDGQPLTLAKVGDLLNISRERVRQIEREALG 303
Query: 491 KLK 493
KL+
Sbjct: 304 KLR 306
>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 (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/355 (31%), Positives = 198/355 (55%), Gaps = 52/355 (14%)
Query: 187 ELIQNRLK--GYVKGVVSEEL----LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPS 240
E+I+ RL+ + +GV++ + L ++ +L+KK++ + D+ + C
Sbjct: 250 EIIRVRLRTIDHCEGVITSAMMETGLPKGDIGKLAKKVRANCACDEDMAK------CRCD 303
Query: 241 MEQLAA---SLRISRPELQSILMECSL---------------------AREKLVMSNVRL 276
++L A SLR++R ++ + MEC + A+++LV +N+RL
Sbjct: 304 GQRLLAVDESLRVARGRIREVEMECKMGAPSLRKILDRVGKGQTLAQDAKQELVEANLRL 363
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ +
Sbjct: 364 VVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQ 423
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR ++ ++E G P+ + IAE ++ +KVR KV
Sbjct: 424 ARTIRIPVHMIETINKLIRTSRYLVQEFGREPTPEEIAEKMDFPLEKVR-------KVLK 476
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ NP V L ++ K ++ TL RE
Sbjct: 477 IAKEPI-SLETPIGEEEDSHLGDF-IEDKKVINPADAVISLNLCEQTRK-VLATLTPREE 533
Query: 452 EIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+++R+ +G+ K T E++ + ++RER+RQ+ AL KL+H +R KK++A +
Sbjct: 534 KVLRMRFGIGQKSDHTLEEVGRDFDVTRERIRQIEAKALRKLRHPSRAKKLKAFI 588
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 132 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEWAALVE 191
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 192 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 251
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 252 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 311
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 312 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 361
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 362 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 420
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 421 IEAKALRKLRHPNR 434
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/307 (33%), Positives = 180/307 (58%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH + V K+++ ++L ++ +L+ L EPS + A + IS
Sbjct: 11 VRTYLKEIGRVPLLTHEQEVVYGKQVQRFVALQAYRTKLEASLEREPSKLEWAEAAGISV 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + LA+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 71 DELTQAMDAGDLAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPL 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +K G +V
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQKLGRAATVAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE + ++ K+VR+ E SLD G+ + + D + +P +D
Sbjct: 191 LAEEVKLTPKQVRDYLEKSRSPLSLDLRI--------GDNQDTNLGD--LLEDPGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++++L + L +++ ++ L +GLD + +T I + + +SRERVRQ+
Sbjct: 241 YATQSLLRKDLDRL-MAELTPQQQRVLHLRFGLDDGKNMTLAKIGEMLSISRERVRQIER 299
Query: 487 VALEKLK 493
AL +L+
Sbjct: 300 EALTRLR 306
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 124 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEWAALVE 183
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 184 MPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 243
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 244 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 303
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 304 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 353
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 354 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 412
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 413 IEAKALRKLRHPNR 426
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 136 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEWAALVE 195
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 196 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 255
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 256 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 315
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 316 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 365
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 366 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 424
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 425 IEAKALRKLRHPNR 438
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + + ++L EP+ A ++
Sbjct: 93 EDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDEIDDQLDDEPTDADWANAVD 152
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L + A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 153 MPLPAFRRRLYQGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 212
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 213 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPT 272
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 273 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 322
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 323 PEDEVSKSLLREDLES-VLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 381
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 382 IEAKALRKLRHPNR 395
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 119/351 (33%), Positives = 193/351 (54%), Gaps = 19/351 (5%)
Query: 159 NSKKKILSQNKSILQQ---NGSKQLRSMIS-----PELI--QNRLKGYVKGVVSEELLTH 208
NSK+K L+ SI + NGS + I P+ I ++ ++ Y++ + LL
Sbjct: 44 NSKQKPLNDEGSIENKDEFNGSDEEAKAIGNVKLGPKGIYTEDSIRVYLQEIGRIRLLRP 103
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREK 268
E + L++KI L L++ + + G PS+ + A + + + L+ A+EK
Sbjct: 104 DEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELTDMPLSKFRRRLLLGRRAKEK 163
Query: 269 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 328
+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWIRQ
Sbjct: 164 MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQA 223
Query: 329 VSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 387
++RA+ + SRT+RLP HL+E + I + K+ +E G PS + IAE + M+ +K+R
Sbjct: 224 ITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIA 283
Query: 388 EAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLG 447
++ SL+ + G+ + I NP V L++++ ++ TL
Sbjct: 284 KSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQDVSKTLLREDLEG-VLATLS 336
Query: 448 EREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
RER+++RL YG+D + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 337 PRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNR 387
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 175/313 (55%), Gaps = 15/313 (4%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + G P+ ++ A+ +
Sbjct: 150 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAEQFNSDHGHYPNNKEWASLVE 209
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 210 MPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 269
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 270 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 329
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNP 425
+ IAE + M+ +K+R F P SL G+ S + D NP
Sbjct: 330 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDTENP 380
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQV 484
V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+
Sbjct: 381 EQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQI 439
Query: 485 GLVALEKLKHAAR 497
AL KL+H R
Sbjct: 440 EAKALRKLRHPNR 452
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 176/310 (56%), Gaps = 35/310 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL------------- 264
+ T ++L + + +L +LG PS+E+ A + +S E++ IL E
Sbjct: 110 LNTFVNLVEKRDQLTSQLGHRPSLEKWADAAEVSVFEVKQILNEGKRHWANLAGLKVQEL 169
Query: 265 ---------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
A+ ++ +N+RLV+S+A+RY N G ++ DL+Q G +GL R +EKFD +KG+
Sbjct: 170 EQIQKAGIEAKNHMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 229
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + KG TP+++ +A
Sbjct: 230 RFSTYAYWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKMAQIKGRTPTMEELAV 289
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
++M+ ++R + + SL+ + G+ + + D E +P + +
Sbjct: 290 EVDMTAPQIREVLMRVPRSVSLEIKV--------GKEKDTELVDLLETTEASPEESLVNE 341
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
L+ ++ L + L RERE+I++ YG D +C + DI + + LSRERVRQ+ A++K
Sbjct: 342 TLRQDLQNL-LADLTTREREVIQMRYGFKDGKCYSLADIGRALQLSRERVRQIEAKAIQK 400
Query: 492 LKHAARKKKM 501
L+ R+ ++
Sbjct: 401 LRQPKRRNQI 410
>gi|359457298|ref|ZP_09245861.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 327
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 187/321 (58%), Gaps = 15/321 (4%)
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
+KQ +SP + ++ Y+ + LLTH E + K+++ ++L D + + LG
Sbjct: 6 TKQQAISVSP--TTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTEMDELG 63
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EPS E+ AA +S +L+ L + A++K++ +N+RLV+S+A++Y ++ DL+Q
Sbjct: 64 REPSSEEWAAKANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQ 123
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 356
G +GL RG+EKFD ++G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ A
Sbjct: 124 EGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKA 183
Query: 357 KLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
+ L +K G + + IAE L + ++R+ + SLD G+ +
Sbjct: 184 QRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRV--------GDNQDTE 235
Query: 416 IADNRVEN--NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISK 472
+ D ++ +P AL+D+VN+L + L ++R+++ L +GL+ + L+ + +
Sbjct: 236 LRDLLEDDGQSPEQFTTTEALRDDVNQL-LKELTPQQRDVLMLRFGLNNGKELSLAKVGQ 294
Query: 473 RIGLSRERVRQVGLVALEKLK 493
++ LSRERVRQ+ AL+ L+
Sbjct: 295 QLSLSRERVRQLERQALDYLR 315
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL ++L EP + A +
Sbjct: 69 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLYDQLEREPKEGEWAKEVE 128
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 129 MELPAFRQRLFLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 188
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 189 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPT 248
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA+ + M+ +K+R F P SL G+ S + D +E +
Sbjct: 249 EEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 298
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 299 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 357
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 358 IEAKALRKLRHPNR 371
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 110/313 (35%), Positives = 175/313 (55%), Gaps = 15/313 (4%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + G P+ ++ AA +
Sbjct: 133 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAEQFNSDHGHYPNNKEWAALVE 192
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 193 MPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 252
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 253 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 312
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNP 425
+ IAE + M+ +K+R F P SL G+ S + D NP
Sbjct: 313 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDTENP 363
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQV 484
V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+
Sbjct: 364 EQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQI 422
Query: 485 GLVALEKLKHAAR 497
AL KL+H R
Sbjct: 423 EAKALRKLRHPNR 435
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 86 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQFESEKGHFPSVREWAELID 145
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 146 MPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 205
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 206 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 265
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 266 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 315
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ
Sbjct: 316 PEQDVSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQ 374
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 375 IEAKALRKLRHPNR 388
>gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium]
Length = 591
Score = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 110/327 (33%), Positives = 182/327 (55%), Gaps = 18/327 (5%)
Query: 187 ELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAA 246
E + ++ Y++ + +LL E + LSK++ + L+ + +E G P+ + A
Sbjct: 272 EAKDDTIRSYLREIGRYQLLHPGEEIELSKQVCILMDLEQFQRSFREEHGKSPTESEWAQ 331
Query: 247 SLRISRP--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
+L+ + + A+E++V +N+RLV+SIA+RY N G + DL+Q G IGL+R
Sbjct: 332 GCGYGDDVEKLREHIRDGRKAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIR 391
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EK 363
G+EKFD+ +GF+ STY WWIRQ ++RA+ ++SR++RLP H+H+ + LIR L+ E
Sbjct: 392 GVEKFDAERGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISLIRKQTKALQVEL 451
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH---HSYIA-DN 419
G PS + I E + + + K R E + SL+ P +G + H S IA +
Sbjct: 452 GRPPSEEEICESVGIDRAKYRLVMECSRNIVSLE---TPLRSG--DDVHFLGESLIAPEE 506
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
R E N L++ + K ++ L RERE+IR+ +GL D T E++ R ++R
Sbjct: 507 RAEENCSRDT----LRESIEK-VLHCLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTR 561
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAML 505
ER+RQ+ AL+KL+ A ++ L
Sbjct: 562 ERIRQIESKALKKLRTPAENNFLDEYL 588
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREKLSEQLDRDPKDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ 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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 180/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRERLSEQLERDPHDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 308
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 309 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 367
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 368 IEAKALRKLRHPNR 381
>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 = 170 bits (431), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 177/308 (57%), Gaps = 35/308 (11%)
Query: 224 LDDHKLRLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILME 261
L D + RL LG PS+E+ A + IS +P EL+ + E
Sbjct: 141 LMDTRDRLTSHLGHRPSLERWAETAGISVVDLKPTLSSGKRHWAELASLTVAELEEAIRE 200
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY
Sbjct: 201 GLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA 260
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQ 380
YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +++G TP++D +A L+M+
Sbjct: 261 YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQDQGRTPTLDDVARELDMTA 320
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGVDDWALKDEV 438
+VR + + SL+ + G+ + + D + +P + AL+ ++
Sbjct: 321 AQVREVLLRVPRSVSLETKV--------GKERDTELGDLLETDSISPEELLMREALRRDL 372
Query: 439 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
+L + L +RERE+IRL +GL D + +I + + LSRERVRQ+ AL+KL+ R
Sbjct: 373 QQL-MADLTDREREVIRLRFGLGDGNPFSLAEIGRALDLSRERVRQIESKALQKLRQPKR 431
Query: 498 KKKMEAML 505
+ ++ L
Sbjct: 432 RNRVRDYL 439
>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 = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 111/313 (35%), Positives = 176/313 (56%), Gaps = 15/313 (4%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ ++ + G P+ ++ AA +
Sbjct: 127 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAIQFESEHGNYPTKKEWAALVN 186
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 187 MPMARFRRRLMLARRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 246
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 247 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 306
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIAD--NRVENNP 425
+ IAE + M+ +K+R F P SL G+ S + D NP
Sbjct: 307 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDFIESDSENP 357
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQV 484
V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ+
Sbjct: 358 ELDVAKTLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQI 416
Query: 485 GLVALEKLKHAAR 497
AL KL+H R
Sbjct: 417 EAKALRKLRHPNR 429
>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 = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + KLRL L QLA
Sbjct: 142 FRQYLREIGRVPLLTAAEEVELARRVEAGL-FAEEKLRLAPDLDS-----QLAV------ 189
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 190 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 248
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 249 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEE 308
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L + ++V G+V L +E SL+ GE + D + + V+
Sbjct: 309 VAAHLELPPERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 360
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 361 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 420
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 421 LNKLRDHAFADQLRGYL 437
>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 = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 98/319 (30%), Positives = 184/319 (57%), Gaps = 15/319 (4%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
+M + + ++ ++ Y++ + LLTH E + K++ L K L +P++
Sbjct: 4 AMKTAQTPKDLVRTYLREIGRVPLLTHEEEILFGKQVHRATVLQSLKESLTNEFNRQPTL 63
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
++ A ++ +L+ + + +A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 64 DEWAERAKLEPQDLEEAIEKGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIG 123
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD SKG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L
Sbjct: 124 MQRGVEKFDPSKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLS 183
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
++ G ++ +A+ L+++ K+VR E SLD G+ + + + +
Sbjct: 184 QRLGRAATISELAQELDLTPKQVREYLEKARVPLSLDLRL--------GDNYDTELGE-- 233
Query: 421 VENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 476
+ +P +D+ ++ ++ + +I L ++R++I L +GL D + +T I +++ +
Sbjct: 234 MLEDPNASPEDFVMQSSLSYELESLIADLTPQQRQVITLRFGLNDGKAMTLVKIGEQLNI 293
Query: 477 SRERVRQVGLVALEKLKHA 495
SRERVRQ+ AL KL+ A
Sbjct: 294 SRERVRQIEREALNKLRKA 312
>gi|86607249|ref|YP_476012.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab]
gi|86555791|gb|ABD00749.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab]
Length = 361
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 102/296 (34%), Positives = 175/296 (59%), Gaps = 10/296 (3%)
Query: 206 LTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLA 265
+ HAE + LS+KI+ L +D + +++ G +PS E+LAA+L+I L+S + + A
Sbjct: 65 IDHAEEIELSRKIQQKLLIDQARREWRQQWGQDPSDEELAAALQIPVSTLRSRIRQGEQA 124
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
+ KL+ +N+RLV+S+A++Y N G DL+Q G +GL+R EKF++ +GF+ STY +WWI
Sbjct: 125 QRKLINANLRLVVSVAKKYLNRGVPFLDLIQEGNMGLIRATEKFNAERGFRFSTYAHWWI 184
Query: 326 RQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
RQG++R + +RT+RLP H+ +++ L+ R + ++ +G P+ +AE L + KK+R
Sbjct: 185 RQGITRCIANQARTIRLPVHMVDKVRLLKRTNRELMKARGRRPTEAELAEALGIKVKKLR 244
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIV 444
+A SLD P G GE+ + + + P+ + +L+ +V + +
Sbjct: 245 MIQQAAALPLSLD---VPV--GQEGESRLGDLLPDERQEQPFEEILVQSLRQDV-RSAMQ 298
Query: 445 TLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLK--HAAR 497
L ER+++ L YGLD + T ++ L+RER+RQ+ AL KL+ H +R
Sbjct: 299 ALKPIERQVLELRYGLDGQRARTLREVGDHFNLTRERIRQIERDALRKLRLGHPSR 354
>gi|78183723|ref|YP_376157.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9902]
gi|78168017|gb|ABB25114.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9902]
Length = 332
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 184/305 (60%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L ++++ + ++ + L+ R G +P+ +QLA + +S
Sbjct: 25 VRSYLRDIGRVPLLTHEQEITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELST 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L + A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 85 VQLKRKLQQGHRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 145 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+++++ + +V++ + SL+ + +G E DN + P V++
Sbjct: 205 LAQFVDLPEDEVKDLMCRARQPVSLEMKVG---DGDDTELLELLSGDNEL---PSDQVEE 258
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GLV 487
LK ++ L + L + +++R+ +G+D E ++ I + +G+SR+RVR + GL
Sbjct: 259 DCLKGDLRSL-LGQLPHLQEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLA 317
Query: 488 ALEKL 492
L ++
Sbjct: 318 GLRRV 322
>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 = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 113/312 (36%), Positives = 174/312 (55%), Gaps = 21/312 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LLT + V L+K ++ G ++RL E AS R R EL
Sbjct: 88 YLQEIGQVPLLTAEQEVELAKAMEAGAIA-------RQRLDREEY-----ASAR-ERFEL 134
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ + + AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD KG
Sbjct: 135 ERAVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYKKGH 194
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ RL++ P+ + IA+
Sbjct: 195 KFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPEEIAD 254
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+ +S KVR EA SL+ G G+ +I D+R+ + P L
Sbjct: 255 AMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASLL 309
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
++++ + +++ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+
Sbjct: 310 REQLEE-VLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVALRKLR 368
Query: 494 HAARKKKMEAML 505
H KK+ L
Sbjct: 369 HPHLGKKLRGYL 380
>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 = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L ++L +P + A +++
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSQQLDRDPKDSEWAEAVQ 137
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 VPLPQFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKNLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>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 (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 111/304 (36%), Positives = 171/304 (56%), Gaps = 30/304 (9%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
+LT E V LSK+I+ GL + E+L P+ +LA P L I+ E
Sbjct: 1 MLTAVEEVTLSKRIEAGLYAE-------EKLSAAPA--ELA-------PLLAVIVAEGKA 44
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KG+K STY WW
Sbjct: 45 AKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 104
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E++ ++R + G PS+ IA +++ + +V
Sbjct: 105 IRQAITRAMADQARTIRIPVHMVEQVNRMVRCRRDLAVSLGREPSIAEIATAMDVPEFQV 164
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE---NNPWHGVDDWALKDEVNK 440
++ S DRE SL+ GE S + D N P GV L+ EV +
Sbjct: 165 I-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPNQPGEGVAQGELRSEV-E 215
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
+++ TL ERE +IRL +GLD T +++ + GLSRER+RQ+ V + KL+ R
Sbjct: 216 IVLATLSERESAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTMLKLRDPERAS 275
Query: 500 KMEA 503
++EA
Sbjct: 276 RLEA 279
>gi|116071698|ref|ZP_01468966.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
gi|116065321|gb|EAU71079.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
Length = 332
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 184/305 (60%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L ++++ + ++ + L+ R G +P+ +QLA + +S
Sbjct: 25 VRSYLRDIGRVPLLTHEQEITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELST 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L + A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 85 VQLKRKLQQGHRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 145 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+++++ + +V++ + SL+ + +G E DN + P V++
Sbjct: 205 LAQFVDLPEDEVKDLMCRARQPVSLEMKVG---DGDDTELLELLSGDNEL---PSDQVEE 258
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GLV 487
LK ++ L + L + +++R+ +G+D E ++ I + +G+SR+RVR + GL
Sbjct: 259 DCLKGDLRSL-LGQLPHLQEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLA 317
Query: 488 ALEKL 492
L ++
Sbjct: 318 GLRRV 322
>gi|298492420|ref|YP_003722597.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae'
0708]
gi|298234338|gb|ADI65474.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae'
0708]
Length = 389
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 179/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L+E LG +PS ++AA ++ +
Sbjct: 81 AFFKEMARYPLLKPDEEVELARRVRFLEEVKDLQAALEEELGQQPSRSEVAAKFEMTEKQ 140
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 141 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 200
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS +A
Sbjct: 201 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMA 260
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L +S +++R + + SL+ G +T + ++ +P +++
Sbjct: 261 TALEISIQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 315
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 316 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 375
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 376 RRPHIAKRLKGWLI 389
>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 = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 192 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELAAQFEADHGHYPDNKEWAALVD 251
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 252 MPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 311
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+
Sbjct: 312 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPT 371
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 372 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 421
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 422 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 480
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 481 IEAKALRKLRHPNR 494
>gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101]
Length = 464
Score = 170 bits (430), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 153 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELAAQFETDHGHYPDTKEWAALVD 212
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 213 MPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 272
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+
Sbjct: 273 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPT 332
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 333 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 382
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 383 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 441
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 442 IEAKALRKLRHPNR 455
>gi|356509511|ref|XP_003523491.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 558
Score = 169 bits (429), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 106/304 (34%), Positives = 168/304 (55%), Gaps = 8/304 (2%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LLT E ++LS I+ L L+ + L ER G +P+ Q AA + + L+ L
Sbjct: 260 LLTPTEEIKLSAGIQDLLKLEKIQEDLAERFGSQPTFAQWAAVAGVDQKTLRKRLNYGIF 319
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
++K++ SN+RLV+SIA+ Y G ++ DLVQ G GL++G EKFD +KGFK STY +WW
Sbjct: 320 CKDKMIKSNIRLVISIAKNYQGSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYAHWW 379
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 383
I+Q V ++L + SRT+RLP H+ E ++ A+ +L E G P + +AE +S K++
Sbjct: 380 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRL 439
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
SL+++ + N P E I+D E + + KD L
Sbjct: 440 NAVLMTPKAPRSLEQKIGINQNLKPSEV----ISDPDAETAEEQLLKQFMKKDLEEALD- 494
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+L RER+++R +G+D T ++I + +G+SRER+RQ+ A +KLK+ R ++
Sbjct: 495 -SLNPRERQVVRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLKNKKRTNHLQ 553
Query: 503 AMLV 506
LV
Sbjct: 554 QYLV 557
>gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa]
Length = 427
Score = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 112/316 (35%), Positives = 181/316 (57%), Gaps = 18/316 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA-ASLRIS 251
++K V S ELL+ E + LS++I+ + L+ K RL R+G EP ++ A A+
Sbjct: 105 FNSFIKEVGSFELLSAEEEIELSRQIRDLVQLETVKKRLAARIGREPREDEWAMAAGTQP 164
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA-DMADLVQGGLIGLLRGIEKFD 310
P QS +++ AR +LV SN+R V+SIA++Y N + DL+Q G IGL++ E+FD
Sbjct: 165 GPAFQSRILKGRRARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFD 224
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
KGFK TY WWIRQ + R+L + RT+RLP H+H+ L LI+ + +L + G P+
Sbjct: 225 LDKGFKFLTYATWWIRQAIFRSLQDQGRTIRLPVHVHDSLYLIKKTRQQLASRLGRIPTP 284
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN---RVEN--- 423
+ +A+ LN+ ++ T+A SL+ + + ET + +N +E+
Sbjct: 285 EELADELNIPVSRLAFITQAASLPISLE-------SPISSETSSTKARNNLGDFIESECL 337
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
P ++ L++++ ++ TL RER+IIR+ YGL D T ++I + +GL+RER+R
Sbjct: 338 QPDEQLERTMLREDLEN-VLATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIR 396
Query: 483 QVGLVALEKLKHAARK 498
Q+ A+ KLK RK
Sbjct: 397 QIEQSAMRKLKAPYRK 412
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 145 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAAQFESDNGREPDTKEWAALVE 204
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 205 MPVIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 264
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 265 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 324
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 325 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 374
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 375 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 433
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 434 IEAKALRKLRHPNR 447
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E EP+ ++ A ++
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANAVD 135
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 136 MRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 195
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 196 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 255
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 256 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 305
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 306 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 364
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 365 IEAKALRKLRHPNR 378
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 176/310 (56%), Gaps = 9/310 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 82 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 141
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 MPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 261
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 262 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 315
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 316 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 374
Query: 488 ALEKLKHAAR 497
AL KL+H R
Sbjct: 375 ALRKLRHPNR 384
>gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa]
gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa]
Length = 567
Score = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 170/303 (56%), Gaps = 14/303 (4%)
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREK 268
E V LS+ I+ L L+ + LKER G EPS Q AA+ + + L+ L L ++K
Sbjct: 273 TEEVELSEGIQDLLKLERIEEELKERFGGEPSFAQWAAAAGVDQLTLRKRLNYGILCKDK 332
Query: 269 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 328
++ SNVRLV+SIA+ Y G ++ DLVQ G GL+RG EKFD+SKGFK STY +WWI+Q
Sbjct: 333 MIKSNVRLVISIAKNYQGTGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 392
Query: 329 VSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNAT 387
V ++L + SRT+RLP H+ + ++ A+ +L E G P +AE +S K++
Sbjct: 393 VRKSLSDRSRTIRLPFHMVDATYRVKEARKQLYSENGRHPDDKEVAEAAGLSMKRLSAVL 452
Query: 388 EAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLG 447
SLD++ +++ E AD E +D +K+ + K + LG
Sbjct: 453 LTPKAPRSLDQKMGFNMDLKLSEV----TADPEAET-----AEDLLMKEFMKKDLAKVLG 503
Query: 448 E---REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
RE +++R +G+ D T ++I + +G+SRERVRQ+ L A KLK+ R K++
Sbjct: 504 SLSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFRKLKNKNRTKQLRQ 563
Query: 504 MLV 506
+V
Sbjct: 564 YMV 566
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 176/310 (56%), Gaps = 9/310 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 82 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 141
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 MPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 261
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 262 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 315
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 316 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 374
Query: 488 ALEKLKHAAR 497
AL KL+H R
Sbjct: 375 ALRKLRHPNR 384
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 139 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEWAALVE 198
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 199 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 258
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 259 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 318
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 319 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 368
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 369 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 427
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 428 IEAKALRKLRHPNR 441
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 185/317 (58%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT AE V L+K+I+ GL E+LG +L +LR+
Sbjct: 97 VRMYLKEIGKVPLLTAAEEVDLAKRIEAGLFA-------AEKLG---GGRRLTVALRV-- 144
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+++ + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 145 -DLEAVARDGDVAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYT 203
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P +
Sbjct: 204 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEE 263
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD- 430
IA+ ++++ KVR ++ + +E SL GE S++ D +++ VD
Sbjct: 264 IAKEMDLTPDKVR-------EILKVAQEPV-SLETPIGEEEDSHLGDFIEDSDAVVPVDA 315
Query: 431 -DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 316 ASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKT 375
Query: 489 LEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 376 LSKLRHPSRSQKLRDYL 392
>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 = 169 bits (428), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E EP+ ++ A ++
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANAVD 135
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 136 MRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 195
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 196 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 255
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 256 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 305
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 306 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 364
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 365 IEAKALRKLRHPNR 378
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 176/310 (56%), Gaps = 9/310 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 83 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 142
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 143 MPLAKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 202
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 203 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 262
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 263 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 316
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 317 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 375
Query: 488 ALEKLKHAAR 497
AL KL+H R
Sbjct: 376 ALRKLRHPNR 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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 176/310 (56%), Gaps = 9/310 (2%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G PS+ + A +
Sbjct: 82 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELID 141
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 142 MPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 201
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G PS
Sbjct: 202 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPS 261
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE + M+ +K+R ++ SL+ + G+ + I NP
Sbjct: 262 EEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADI------ENPEQD 315
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
V L++++ ++ TL RER+++RL YG+D + T E+I + ++RER+RQ+
Sbjct: 316 VSKTLLREDLEG-VLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAK 374
Query: 488 ALEKLKHAAR 497
AL KL+H R
Sbjct: 375 ALRKLRHPNR 384
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E EP+ ++ A ++
Sbjct: 61 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANAVD 120
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ PE + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 121 MRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 180
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 181 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 240
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 241 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 290
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 291 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 349
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 350 IEAKALRKLRHPNR 363
>gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12]
Length = 409
Score = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 182/317 (57%), Gaps = 24/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT E V L+K+I+ GL D KL + + P M R
Sbjct: 112 VRMYLKEIGKVPLLTAEEQVDLAKRIEAGLFASD-KLAVATK-KTSPQM----------R 159
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 160 RDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYT 219
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS +
Sbjct: 220 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPSPEE 279
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD- 430
IA+ ++++ KVR ++ + +E SL GE S++ D + + VD
Sbjct: 280 IAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVVPVDA 331
Query: 431 -DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 332 ASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKT 391
Query: 489 LEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 392 LSKLRHPSRSQKLRDYL 408
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+LG P ++ A
Sbjct: 78 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLGTTPDLDSELAQ----- 125
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 126 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 184
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 185 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEE 244
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+ +L++ ++V G+V L +E SL+ GE + D + + V+
Sbjct: 245 VGAHLDLPPERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVES 296
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 297 AAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKT 356
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 357 LNKLRDHAFADQLRGYL 373
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 134/406 (33%), Positives = 211/406 (51%), Gaps = 47/406 (11%)
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 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLV 277
I L L+ + +L E EP + A ++ ++ P + L A+EK+V SN+RLV
Sbjct: 105 IADLLELERVREQLLEEYNREPKDSEWANAVDMALPAFRHRLHVGRRAKEKMVQSNLRLV 164
Query: 278 MSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 337
+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WWIRQ ++RA+ + S
Sbjct: 165 VSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQS 224
Query: 338 RTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 396
RT+RLP HL+E + I + KL +E G P+ + IA + M+ +K+R F
Sbjct: 225 RTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLR---------FIA 275
Query: 397 DREAFP-SLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGERERE 452
P SL G+ S + D +E++ P V L++++ ++ TL RER+
Sbjct: 276 KSAQLPISLETPIGKEEDSRLGDF-IESDGETPEDQVSKNLLREDLES-VLDTLSPRERD 333
Query: 453 IIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 334 VLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 379
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E EP + A ++
Sbjct: 77 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREQLLEEYNREPKDSEWANAVE 136
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
++ P + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 137 MALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 196
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 197 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 256
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 257 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 306
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 307 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 365
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 366 IEAKALRKLRHPNR 379
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 114/341 (33%), Positives = 190/341 (55%), Gaps = 28/341 (8%)
Query: 172 LQQNGSKQLRSMISPEL---IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHK 228
L+ GS + S I PE + + Y++ + LLT AE V L+++++ GL + K
Sbjct: 84 LETAGSAEPASRIRPETGGPSSDLFRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEK 142
Query: 229 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
LRL L +++ L +++ +A+ +L+ +N+RLV+S+A+RY G
Sbjct: 143 LRLTPDLDSGLALD------------LDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRG 190
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
M DLVQ G +GL+R +EKFD ++G+K STY WWIRQ +SRAL + +RT+R+P H+ E
Sbjct: 191 LTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVE 250
Query: 349 RLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL 407
+ ++R + L+E+G P+ +A +L++ ++V G+V L +E SL+
Sbjct: 251 LINRVVRVQRRMLQERGYEPTPGEVAAHLDLPPERV-------GEVLRLAQEPV-SLHAP 302
Query: 408 PGETHHSYIADNRVENNPWHGVDDWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 464
GE + D + + V+ A L E + ++ TLGERER++++L YGL D
Sbjct: 303 VGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRP 362
Query: 465 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E+I + G++RER+RQ+ L KL+ A ++ L
Sbjct: 363 RTLEEIGRLFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 403
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 112/319 (35%), Positives = 175/319 (54%), Gaps = 27/319 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ +LK +L EP + A ++
Sbjct: 72 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLQLERVYEQLKAQLDREPKDSEWALAVE 131
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 132 MPLPQFRHRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 191
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 192 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 251
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNPWH 427
+ IA + M+ +K+R F P SL G+ S + D +
Sbjct: 252 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD-------FI 295
Query: 428 GVDDWALKDEVNK--------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSR 478
D +DEV+K ++ TL RER+++RL YGLD + T E+I + ++R
Sbjct: 296 EADGETPEDEVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 355
Query: 479 ERVRQVGLVALEKLKHAAR 497
ER+RQ+ AL KL+H R
Sbjct: 356 ERIRQIEAKALRKLRHPNR 374
>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 (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 109/323 (33%), Positives = 184/323 (56%), Gaps = 32/323 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLT E V L+K+I+ GL + E+LA + +
Sbjct: 110 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAVATKK 153
Query: 251 SRP----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +
Sbjct: 154 TSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAV 213
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGV 365
EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 214 EKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGR 273
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 425
PS + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 274 EPSPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDA 325
Query: 426 WHGVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+R
Sbjct: 326 VVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIR 385
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ L KL+H +R +K+ L
Sbjct: 386 QIESKTLSKLRHPSRSQKLRDYL 408
>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 = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 102/311 (32%), Positives = 188/311 (60%), Gaps = 11/311 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L K+++ ++L + + L + LG E + E+ AA+ ++
Sbjct: 2 VRTYLQEIGRVPLLTHEQEIILGKQVQQMMALREKRDALTKELGREATFEEWAAACNLTP 61
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL +IL A++K++ +N+RLV+S+A++Y ++ DLVQ G +GL RG+EKFD +
Sbjct: 62 TELCNILKRGERAKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFDPT 121
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G + +
Sbjct: 122 RGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATPAE 181
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L + +++R + SLD + + GE + D+ + + V+
Sbjct: 182 VAKALELEPEQIREYLTLARQPVSLDLRVGDNQDTELGE----LLEDDSLSPEQFTTVE- 236
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+L+D+VN L + L ++R+++ L YGL D + L+ + +++ LSRERVRQ+ AL+
Sbjct: 237 -SLRDDVN-LWLAELTPQQRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALD 294
Query: 491 KLKHAARKKKM 501
L+ R+++M
Sbjct: 295 HLRR--RRQQM 303
>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 (427), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 183/321 (57%), Gaps = 32/321 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT E V L+K+I+ GL + E+LA + + +
Sbjct: 112 VRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAVATKKTS 155
Query: 253 P----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EK
Sbjct: 156 PQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEK 215
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P
Sbjct: 216 FDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREP 275
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
S + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 276 SPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVV 327
Query: 428 GVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 328 PVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQI 387
Query: 485 GLVALEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 388 ESKTLSKLRHPSRSQKLRDYL 408
>gi|453051815|gb|EME99312.1| RNA polymerase sigma factor [Streptomyces mobaraensis NBRC 13819 =
DSM 40847]
Length = 379
Score = 169 bits (427), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 183/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+L +P ++ A
Sbjct: 83 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLSNDPDLDTCLAL----- 130
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 131 -DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYA 189
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 190 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGSEPTAEE 249
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A YL++S+++V +V L +E SL+ GE + D + + V+
Sbjct: 250 VAAYLDLSEERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 301
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 302 AAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKT 361
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 362 LNKLRDHAFADQLRGYL 378
>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 = 169 bits (427), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 112/326 (34%), Positives = 181/326 (55%), Gaps = 12/326 (3%)
Query: 183 MISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME 242
M + + + ++ Y++ + LLTH + + K+++ +L + L G EP+ +
Sbjct: 1 MKTAQTATDLVRTYLREIGRVPLLTHEQEILYGKQVQRLSALQTVREALLAEYGQEPTPD 60
Query: 243 QLA-ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
+ A AS EL I+ LA+ K+V +N+RLV+S+A++Y D+ DL+Q G IG
Sbjct: 61 EWAKASDLADSEELAKIIAAGELAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIG 120
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
+ RG+EKFD +KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L
Sbjct: 121 MQRGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLS 180
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+K G P+ +A L ++ K+VR E SLD + + GE A
Sbjct: 181 QKLGRAPTAGELATELELTTKQVREYLERARLPLSLDLRVGDNQDTELGELLEDTGA--- 237
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+P V +L +++ L++ L ++RE++ L +GL D + LT I R+ +SRE
Sbjct: 238 ---SPEEFVMQSSLATDLD-LLMADLTPQQREVLILRFGLSDGQALTLAKIGDRLNISRE 293
Query: 480 RVRQVGLVALEKLKHAARKKKMEAML 505
RVRQ+ AL KL+ RK M+ L
Sbjct: 294 RVRQIEREALTKLRK--RKADMDQYL 317
>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 (427), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 109/323 (33%), Positives = 184/323 (56%), Gaps = 32/323 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLT E V L+K+I+ GL + E+LA + +
Sbjct: 110 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAVATKK 153
Query: 251 SRP----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +
Sbjct: 154 TSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAV 213
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGV 365
EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 214 EKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGR 273
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 425
PS + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 274 EPSPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDA 325
Query: 426 WHGVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+R
Sbjct: 326 VVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIR 385
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ L KL+H +R +K+ L
Sbjct: 386 QIESKTLSKLRHPSRSQKLRDYL 408
>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: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
R EL+ + + AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD
Sbjct: 131 RFELERAVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDY 190
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
KG K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ RL++ P+ +
Sbjct: 191 KKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQREPTPE 250
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
IA+ + +S KVR EA SL+ G G+ +I D+R+ + P
Sbjct: 251 EIADAMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAA 305
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
L++++ + +++ L ERER+II+L YGL D T E++ G++RER+RQ+ VAL
Sbjct: 306 ASLLREQLEE-VLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEAVAL 364
Query: 490 EKLKHAARKKKMEAML 505
KL+H KK+ L
Sbjct: 365 RKLRHPHLGKKLRGYL 380
>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 (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 109/316 (34%), Positives = 181/316 (57%), Gaps = 26/316 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ G+ +LLT A+ V LS++I+ GL + KL C P ++A+LR
Sbjct: 31 VRAYLYGIGKTKLLTAAQEVELSRRIEAGL-FAEAKL-----AACTP----VSATLR--- 77
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ + +E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 78 ADLELVAVEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYT 137
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + SRT+R+P H+ E++ ++R + G P+V
Sbjct: 138 KGYKFSTYATWWIRQAITRAMADQSRTIRIPVHMVEQVNRMVRTRRDLSVSLGREPTVTE 197
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L++ + + I ++ S DRE SL+ GE S + D N D+
Sbjct: 198 VARALDVPEVQ-------IIELISYDREPV-SLDQAVGEDGESPLGDFVAVVNATAAPDN 249
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
A + E+ + ++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+
Sbjct: 250 TAERGELRQEVRGVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKG 309
Query: 488 ALEKLKHAARKKKMEA 503
L KL+ R +++ A
Sbjct: 310 TLRKLRAPERAQRLAA 325
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 109/323 (33%), Positives = 184/323 (56%), Gaps = 32/323 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLT E V L+K+I+ GL + E+LA + +
Sbjct: 93 DPVRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAVATKK 136
Query: 251 SRP----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +
Sbjct: 137 TSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAV 196
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGV 365
EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 197 EKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGR 256
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP 425
PS + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 257 EPSPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDA 308
Query: 426 WHGVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+R
Sbjct: 309 VVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIR 368
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ L KL+H +R +K+ L
Sbjct: 369 QIESKTLSKLRHPSRSQKLRDYL 391
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L E+L EP+ + A +
Sbjct: 70 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRADLAEQLEREPTDAEWAQKVD 129
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 130 MALPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 189
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 190 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 249
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 250 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 299
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 300 PEDQVSKNLLREDLES-VLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 358
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 359 IEAKALRKLRHPNR 372
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 114/363 (31%), Positives = 197/363 (54%), Gaps = 55/363 (15%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSL-------DDHKL----------- 229
L + ++ Y++ + LLT +E +RL+++++ +L DD +L
Sbjct: 19 LTTDLVRQYLQEIGRVPLLTPSEELRLAEQVQQYQALLAVRDQSDDPQLKRYVAAVRERD 78
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILM----------------------ECSLARE 267
RL+ LG S Q AA L++S ELQ+ + + A+
Sbjct: 79 RLRPLLGRPLSRAQWAAGLKMSVAELQTCVQAGRQAWAKAANITLSELQHIERQGQRAKN 138
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L+ +N+RLV++IA++Y + G + DL+Q G +GL R +EKFD +KGF+ STY YWWIRQ
Sbjct: 139 QLLQANLRLVVNIAKKYQHHGVEFLDLIQEGSLGLERAVEKFDPTKGFRFSTYAYWWIRQ 198
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
++RA+ SRT+RLP H+ E+L I+ A+ RL ++G PS+ IA+ LN+ +VR
Sbjct: 199 SITRAVASQSRTIRLPIHMVEKLNKIKRAQRRLAAQRGAMPSLADIAQELNLEVSQVRQV 258
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVN---KLII 443
A+ K +L++ G ET + + +P D+ +++ + K ++
Sbjct: 259 LMAVPKSVALEQRV-----GSDQETELQELIE-----SPAPTPDEVIMRESLRTTLKQLL 308
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L RER+++ L YGL ++ L +++ +GLSRER+RQ+ AL+KL+ R+++++
Sbjct: 309 SDLSPRERQVMELRYGLGEQPALELAEVAVLLGLSRERIRQIEHRALQKLRQPQRRREIQ 368
Query: 503 AML 505
L
Sbjct: 369 DYL 371
>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 = 168 bits (426), Expect = 5e-39, Method: Compositional matrix adjust.
Identities = 104/307 (33%), Positives = 184/307 (59%), Gaps = 15/307 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH E + +K+++ + L++ K LK++LG EP+ + AA+ ++
Sbjct: 11 VRAYLREIGRVPLLTHEEEIHYAKRVQRLVVLENLKESLKQKLGKEPTDSEWAAAAELTE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL++ + A+ K+V +N+RLV+S+A++Y D+ DL+Q G +G+ RG+EKFD +
Sbjct: 71 AELRNCIAAGDAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTLGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ +L +E G ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQENGRAATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L ++ K+VR E + SLD G+ H + + + + + +D
Sbjct: 191 LAQELELTPKQVREYLERARQPLSLDLRV--------GDNHDTELGE--LLEDTGLLPED 240
Query: 432 WALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+A+ + + ++ L ++RE++ L +GL D + LT I R+ +SRERVRQ+
Sbjct: 241 YAIHSSLQLDLEKLMADLTPQQREVLALRFGLTDGKPLTLAKIGIRLNISRERVRQIERE 300
Query: 488 ALEKLKH 494
AL KL+
Sbjct: 301 ALSKLRQ 307
>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 = 168 bits (426), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 183/321 (57%), Gaps = 32/321 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT E V L+K+I+ GL + E+LA + + +
Sbjct: 95 VRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------ASEKLAVATKKTS 138
Query: 253 P----ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
P +L++I + +A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EK
Sbjct: 139 PQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEK 198
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P
Sbjct: 199 FDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREP 258
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
S + IA+ ++++ KVR ++ + +E SL GE S++ D + +
Sbjct: 259 SPEEIAKEMDLTPDKVR-------EILKVSQEPV-SLETPIGEEEDSHLGDFIEDCDAVV 310
Query: 428 GVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 311 PVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQI 370
Query: 485 GLVALEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 371 ESKTLSKLRHPSRSQKLRDYL 391
>gi|414079485|ref|YP_007000909.1| RpoD family RNA polymerase sigma factor SigE [Anabaena sp. 90]
gi|413972764|gb|AFW96852.1| RpoD family RNA polymerase sigma factor SigE [Anabaena sp. 90]
Length = 389
Score = 168 bits (426), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 180/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + + L+ +LG +PS Q+A+ L I+ +
Sbjct: 81 AFFKEMARYPLLKPDEEVELARRVRFLEEVKELQAALELQLGAQPSKVQVASQLEITEKQ 140
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 141 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKG 200
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 201 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPTEAEMA 260
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L ++ ++R + + SL+ G +T + ++ +P +++
Sbjct: 261 EALEITVHQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 315
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 316 MRQEIWEVLGDVLTPREKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 375
Query: 493 KHAARKKKMEAMLV 506
+ K+++ LV
Sbjct: 376 RRPHIAKRLKGWLV 389
>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 = 168 bits (426), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 182/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ +++ + L++ LG +P+ +AA L+I+ +
Sbjct: 81 AFFKEMARYPLLKPDEEVELARRVRFLEEVNEIQAALRQELGHQPTKASIAAHLQITEKQ 140
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 141 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 200
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L+++ G P+ +A
Sbjct: 201 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQRLGRNPNEIEMA 260
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L + +++R + + SL+ G +T + ++ +P +++
Sbjct: 261 EALEIPPQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNESM 315
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 316 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 375
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 376 RRPHIAKRLKGWLI 389
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G EP ++ AA +
Sbjct: 168 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAAQFESDNGREPDTKEWAALVE 227
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 228 MPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 287
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 288 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 347
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 348 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 397
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 398 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 456
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 457 IEAKALRKLRHPNR 470
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 104/300 (34%), Positives = 171/300 (57%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILM----------------------ECSLARE 267
RL LG PS+E+ A S I EL+ +L+ E + A+E
Sbjct: 117 RLTSELGHRPSLERWATSAGIEVAELKPLLIKGKRRWAEITGLTVQELEQIQSEGNRAKE 176
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R ++KFD +KG++ STY YWWIRQ
Sbjct: 177 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTKGYRFSTYAYWWIRQ 236
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP++D IA L M+ +VR
Sbjct: 237 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIDDIAAELEMTPPQVREV 296
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + + + +P + AL+ ++ L + L
Sbjct: 297 LLRVPRSVSLETKVGKEKDTELGE----LLETDSI--SPEEVLMREALQRDLQHL-LADL 349
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 350 TDRERDVILMRFGLGDGHSYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNQVRDYL 409
>gi|75907421|ref|YP_321717.1| sigma 28 (flagella/sporulation) [Anabaena variabilis ATCC 29413]
gi|75701146|gb|ABA20822.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413]
Length = 378
Score = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 179/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L+ +LG P+ Q+AA L I+ +
Sbjct: 70 AFFKEMARYPLLKPDEEVELARRVRFLEEVRDLQADLQLQLGLHPTKAQVAAQLEITEKQ 129
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 130 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 189
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS +A
Sbjct: 190 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMA 249
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L +S ++R + + SL+ G +T + ++ +P +++
Sbjct: 250 EALEISVPQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 304
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 305 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 364
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 365 RRPHIAKRLKGWLI 378
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ AA +
Sbjct: 129 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPETKEWAALVE 188
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 189 MPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 248
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 249 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 308
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 309 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 358
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 359 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 417
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 418 IEAKALRKLRHPNR 431
>gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri]
gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri]
Length = 525
Score = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 110/327 (33%), Positives = 178/327 (54%), Gaps = 23/327 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG--CEPSMEQLAASL 248
+ ++ Y+K + S LL + V L+K+I+ + L+ + L E G E S Q AA+
Sbjct: 201 DSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLIEETGPGVELSESQWAAAA 260
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
++ L+ L + A+ +++ +N+RLV+SIA++Y N DL+Q G +GL+RG EK
Sbjct: 261 GLNVSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYANTNMSFQDLIQEGCVGLIRGAEK 320
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK----- 363
FD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + I ++E+K
Sbjct: 321 FDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRIS----KMEQKFALYN 376
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G P+++ IA + MS +K+ +A SL + GE I D ++
Sbjct: 377 GRPPTLEEIASEMEMSVEKITQIKKAAQAPVSL-------AQTMGGENKGRTIEDTLIDA 429
Query: 424 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRE 479
N P LK+++ ++ TL RER+++RL YGLD T E+I ++RE
Sbjct: 430 NAEGPEKVSGKSLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRE 488
Query: 480 RVRQVGLVALEKLKHAARKKKMEAMLV 506
R+RQ+ AL KLK +R + ++ V
Sbjct: 489 RIRQIEAKALRKLKQPSRNQVLQEYFV 515
>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 = 168 bits (425), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ +L E L +P + A ++
Sbjct: 61 EDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERVYDQLAETLQRDPQDAEWAEAVD 120
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 121 MPLPKFQRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 180
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 181 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 240
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 241 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 290
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 291 PEDEVSKSLLREDLES-VLGTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 349
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 350 IEAKALRKLRHPNR 363
>gi|17158744|ref|NP_478255.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
gi|17134693|dbj|BAB77251.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
Length = 323
Score = 168 bits (425), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 178/305 (58%), Gaps = 8/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ +V LLTH E + SK+++ + L K LK++L EPS ++LA +++S
Sbjct: 15 VRNYLQDIVRVPLLTHEEEIVYSKQVQQMMVLQKKKETLKKQLNHEPSQKELAKYVQLSE 74
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ I + + A++K++++N+RLV++IA++Y ++ DL+Q G +GL RG+EKFD +
Sbjct: 75 IEVKDIFQQGTQAKQKMMVANLRLVVAIAKKYQRRNLELMDLIQEGSLGLERGVEKFDPT 134
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWI Q ++RA+ + SRT+RLP H+ E+L + + L +K +PS D
Sbjct: 135 RGYKFSTYAYWWISQAMTRAISQQSRTIRLPIHITEKLNKFKKVQRELSQKLKRSPSADE 194
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IAE + ++ ++R + SLD++ G +T + E +P V
Sbjct: 195 IAEKMKLNPAQIRELLMISRQPASLDKQV-----GDNEDTELQELLTEVPETSPEIQVTQ 249
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
++ ++ L + L ++++++ L+YGL D LT +++ + +S RVR + AL
Sbjct: 250 NLMRQDIY-LSLRELTPQQQQVLILHYGLEDNYELTLTQVAQHLNISERRVRYLEKQALS 308
Query: 491 KLKHA 495
L+
Sbjct: 309 YLRRC 313
>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 = 168 bits (425), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 96/243 (39%), Positives = 147/243 (60%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K STY WW
Sbjct: 162 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 221
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP H+ E + ++ A +L++ P+ + IA+ + +S KV
Sbjct: 222 IRQAITRAIADQSRTIRLPVHMGEAISQVKRASHKLQQMMQREPTPEEIADAMGISSTKV 281
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 282 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASMLREQLEE-VL 335
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 336 QKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRHPHLGKKLR 395
Query: 503 AML 505
L
Sbjct: 396 GYL 398
>gi|1519636|gb|AAB07551.1| SigA [Chloroflexus aurantiacus J-10-fl]
Length = 343
Score = 168 bits (425), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 100/258 (38%), Positives = 154/258 (59%), Gaps = 12/258 (4%)
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+R EL+ + + AR L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD
Sbjct: 92 ARFELERAVQQGQDARHHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFD 151
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTP 367
KG K STY WWIRQ ++RA+ + SRT+RLP H+ E + ++ RL+ ++ TP
Sbjct: 152 YKKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHRLQQTMQRDATP 211
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ IA+ + +S KVR EA SL+ G G+ +I D+R+ + P
Sbjct: 212 --EEIADAMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAE 264
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
L++++ + +++ L ERER+II+L YGL D T E++ G++RER+RQ+
Sbjct: 265 APAASLLREQLEE-VLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQIEA 323
Query: 487 VALEKLKHAARKKKMEAM 504
VAL KL+H KK+ A+
Sbjct: 324 VALRKLRHPHLGKKLRAI 341
>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 = 8e-39, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 99 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 158
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 159 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 218
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L++++N
Sbjct: 219 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLN 270
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 271 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 329
Query: 499 KKMEAML 505
K+++ +
Sbjct: 330 KQLKDFM 336
>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 = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 113/320 (35%), Positives = 182/320 (56%), Gaps = 35/320 (10%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRIS---R 252
Y+K + LLT E V L+K+I+ GL + E+LAA R S R
Sbjct: 107 YLKAIGRVRLLTAEEEVDLAKRIEAGLF----------------ASEKLAAIRRTSPRLR 150
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L++I + +A+ KLV +N+RLV+SIA+RY G + DL+Q G +GL+R +EKFD +
Sbjct: 151 RDLEAIEQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKFDYT 210
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ V+RA+ + RT+R+P H+ E + + R + L++ G PS +
Sbjct: 211 KGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMVETINKVTRIQRQLLQDLGREPSPEE 270
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
IA ++++ +V E I KV + +L GE S + D +E+N P+
Sbjct: 271 IATQVDLAPHRV----EEILKVG----QTPVALETPIGEEQDSQLGDF-IEDNDAIVPFE 321
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
L+++++ ++ TL ERE+++I+L +GL D + T E + + G++RER+RQ+
Sbjct: 322 AASFVLLQEQIDS-VLHTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIES 380
Query: 487 VALEKLKHAARKKKMEAMLV 506
L KL H AR +++ LV
Sbjct: 381 RTLAKLSHPARSQRLRDYLV 400
>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 = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 106/316 (33%), Positives = 175/316 (55%), Gaps = 26/316 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++G+ +LLT A+ V LS++I+ GL + C P L R
Sbjct: 35 VRAYLQGIGRTKLLTAAQEVELSRRIEAGL------FAATKLATCTPVSVAL-------R 81
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ + E A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 82 ADLELVAAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYT 141
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ ++R + G P+V
Sbjct: 142 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRTRRELSVSLGREPTVAE 201
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L++ + +V ++ S DRE SL+ GE S + D + G DD
Sbjct: 202 VARTLDIPEIQVI-------ELISYDREPV-SLDQTVGEDGESPLGDFVAAVDSTAGTDD 253
Query: 432 WALKDEVNKL---IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
E+ + ++ TL +RE+ +IRL +GLD T +++ + GLSRER+RQ+
Sbjct: 254 TVSGGELRQEMCGVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKG 313
Query: 488 ALEKLKHAARKKKMEA 503
L KL+ R +++EA
Sbjct: 314 TLHKLRAPERAQRLEA 329
>gi|81300555|ref|YP_400763.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus
PCC 7942]
gi|123556657|sp|Q31ME3.1|RPOD2_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD2
gi|81169436|gb|ABB57776.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus
PCC 7942]
Length = 320
Score = 167 bits (424), Expect = 8e-39, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 188/315 (59%), Gaps = 13/315 (4%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
G+EKFD SKG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L ++ + L ++
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQL 184
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G + + +AE L + ++VR + + SLD + G +T + ++ ++
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLDVKV-----GDSQDTELQELLEDE-QS 238
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
+P V+ +L+ ++ L + L +++ +I L YGLD+ + L+ + +R+ +SRERVR
Sbjct: 239 SPSDYVEQESLRRDLRNL-MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVR 297
Query: 483 QVGLVALEKLKHAAR 497
++ A++ L+ +R
Sbjct: 298 KLERQAMDHLRRRSR 312
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L++++N
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLN 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 D-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKMEAML 505
K+++ +
Sbjct: 361 KQLKDFM 367
>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 = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 95/243 (39%), Positives = 146/243 (60%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
+R+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K STY WW
Sbjct: 154 SRQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 213
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P+ + IAE + +S KV
Sbjct: 214 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQSMQREPTPEEIAEAMGISAGKV 273
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 274 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPSEAAAAAMLREQIEE-VL 327
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 328 QKLPERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRKLRHPHLGKKLR 387
Query: 503 AML 505
L
Sbjct: 388 GYL 390
>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 = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 103/302 (34%), Positives = 172/302 (56%), Gaps = 35/302 (11%)
Query: 230 RLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILMECSLARE 267
RL +LG PS+E+ A + I +P EL+ + E A+E
Sbjct: 121 RLASQLGHRPSLERWATAAGIDVSQLKPSMSAGKLRWAELAELTSKELEQVQAEGLQAKE 180
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 181 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 240
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +E+G T ++D IA L M+ +VR
Sbjct: 241 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQERGRTATIDDIAVELEMTAAQVREV 300
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIV 444
+ + SL+ + G+ + + D E +P + AL+ ++ +L +
Sbjct: 301 LLRVPRSVSLEIKV--------GKERDTELGDLLETEETSPEEVLMREALQRDLQQL-LA 351
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L RER++IR+ +GL D + + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 352 DLTNRERDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRD 411
Query: 504 ML 505
L
Sbjct: 412 YL 413
>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 = 167 bits (424), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L L EP + + A ++
Sbjct: 75 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREELIYHLDREPQVSEWANAVD 134
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P+ + L+ A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 135 MELPKFKRRLILGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 194
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 195 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 254
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 255 EEEIATSMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 304
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 305 PEDEVSKNLLREDLES-VLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 363
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 364 IEAKALRKLRHPNR 377
>gi|427724985|ref|YP_007072262.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427356705|gb|AFY39428.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 373
Score = 167 bits (424), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 111/322 (34%), Positives = 184/322 (57%), Gaps = 14/322 (4%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ + + K + LL E ++L+ +K ++ +L L E LG PS E+ AA L+
Sbjct: 59 EDTVGAFFKEMARYPLLKPDEEIQLAHSVKFLNDAEEKRLALTEELGRSPSKEEWAAVLK 118
Query: 250 ISR-PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
I+ EL S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G IGL R EK
Sbjct: 119 IATIRELNSQLYKGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEK 178
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTP 367
FD +KG+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L++K P
Sbjct: 179 FDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQKLQRNP 238
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--- 424
S +A+ L++S ++ + + L R++ SLN G+ + + D ++
Sbjct: 239 SETELAQELDISADQLHH-------LLQLRRQSL-SLNHRVGKGEDTELVDLLEDDGLQL 290
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQ 483
P + + ++ E+ ++ L +RE+E+I L YGL E T E++ LSRERVRQ
Sbjct: 291 PEERMSEAMMRQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGIFNLSRERVRQ 350
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ A+ KL+ +K+++ L
Sbjct: 351 IQSKAMRKLRRPQVARKLKSWL 372
>gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205]
Length = 470
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 175/314 (55%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + + G P ++ A +
Sbjct: 159 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELANQFEADNGHYPDTKEWATLVE 218
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 219 MPLVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 278
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +E G P+
Sbjct: 279 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFGRKPT 338
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 339 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 388
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 389 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 447
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 448 IEAKALRKLRHPNR 461
>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 (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 175/314 (55%), Gaps = 35/314 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILM--------ECSL----- 264
+K + L + + RL +LG PS E A + S EL+ L C L
Sbjct: 90 LKDYVDLQEGRDRLTAQLGHRPSFEAWAKIVDCSLTELRQALQLGLHRWAEVCQLDLEEL 149
Query: 265 ---------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
A++ ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 150 KQVCKEGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 209
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +++ IA+
Sbjct: 210 RFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRKIAQTKGRTANLEEIAQ 269
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
L M+ +VR + K SL+ G+ + + D + P +
Sbjct: 270 ELEMTPDQVREVLLRVPKSISLETRV--------GKEKDTELGDLLETTDFTPEERLTQE 321
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L +++ +L++ L RER++IR+ +GL D + + +I + + LSRERVRQ+ AL+K
Sbjct: 322 SLSNDLQRLLL-ELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKALQK 380
Query: 492 LKHAARKKKMEAML 505
L+H R+ ++ L
Sbjct: 381 LRHPRRRNQIRDYL 394
>gi|78211648|ref|YP_380427.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9605]
gi|78196107|gb|ABB33872.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9605]
Length = 335
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 180/305 (59%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L ++++ + L+ + LK + G +PS +QLA + +S
Sbjct: 28 VRSYLRDIGRVPLLTHEQEITLGRQVQELMDLESLESELKSKAGEKPSRDQLAKASGLSS 87
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 88 IQLKRKLQHGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 147
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 148 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTE 207
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE++ + + V++ + SL+ + +G E D + P V++
Sbjct: 208 LAEFVELPEDDVKDLMCRARQPVSLEMKVG---DGDDTELLELLSGDG---DLPSDQVEE 261
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GLV 487
LK ++ L + L + +++R+ YG+D E ++ I + +G+SR+RVR + GL
Sbjct: 262 DCLKGDLRSL-LGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLA 320
Query: 488 ALEKL 492
L ++
Sbjct: 321 GLRRV 325
>gi|2385506|dbj|BAA22190.1| RpoD2 protein [Synechococcus elongatus PCC 7942]
Length = 320
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 188/315 (59%), Gaps = 13/315 (4%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDREIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
G+EKFD SKG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L ++ + L ++
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQL 184
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G + + +AE L + ++VR + + SLD + G +T + ++ ++
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLDVKV-----GDSQDTELQELLEDE-QS 238
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
+P V+ +L+ ++ L + L +++ +I L YGLD+ + L+ + +R+ +SRERVR
Sbjct: 239 SPSDYVEQESLRRDLRNL-MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVR 297
Query: 483 QVGLVALEKLKHAAR 497
++ A++ L+ +R
Sbjct: 298 KLERQAMDHLRRRSR 312
>gi|440680152|ref|YP_007154947.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428677271|gb|AFZ56037.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 377
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 179/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L+ LG +PS ++A+ ++ +
Sbjct: 69 AFFKEMARYPLLKADEEVELARRVRFLEEVKDLQAALELELGQQPSKNEVASKFEMTEKQ 128
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 129 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 188
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS +A
Sbjct: 189 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMA 248
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L +S +++R + + SL+ G +T + ++ +P +++
Sbjct: 249 ESLEISVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 303
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 304 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 363
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 364 RRPHIAKRLKGWLI 377
>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 = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 179/317 (56%), Gaps = 20/317 (6%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE---PSMEQLAA 246
++ ++ Y++ + LL E + L++KI L L+D + L E+ C+ ++E A
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLQLEDKQRELAEQHDCDLEDVNLEDWAV 138
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ + + ++ L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 139 EMDMPLDKFKNRLHSGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA 198
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGV 365
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 199 EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGR 258
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN 424
PS + IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 259 KPSEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESD 308
Query: 425 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 309 GETPDDQVAKNLLREDLES-VLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 367
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 368 IRQIEAKALRKLRHPNR 384
>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 = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 112/319 (35%), Positives = 174/319 (54%), Gaps = 30/319 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ G+ LLT E V LSK+I+ GL + E+L A+
Sbjct: 36 VRAYLNGIGRTRLLTAVEEVTLSKRIEAGLYAE----------------EKLPAADAALA 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L ++ E A+ L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +
Sbjct: 80 ELLDIVIAEGRAAKNHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E++ + A+ L + G PS+
Sbjct: 140 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRARRDLSAQLGREPSIAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE---NNPWHG 428
IA + + + +V ++ S DRE SL+ GE S + D N P G
Sbjct: 200 IATAMAVPEFQVI-------ELISYDREPV-SLDQAVGEDGESALGDFVAAVDPNQPGEG 251
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
V L+ EV ++++ TL ERE +IRL +GLD T +++ + GLSRER+RQ+ V
Sbjct: 252 VSQGELRSEV-EIVLATLSERESAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKV 310
Query: 488 ALEKLKHAARKKKMEAMLV 506
+ KL+ R ++EA V
Sbjct: 311 TMLKLRDPERASRLEAYAV 329
>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 = 102/302 (33%), Positives = 173/302 (57%), Gaps = 35/302 (11%)
Query: 230 RLKERLGCEPSMEQLAASL----------------------RISRPELQSILMECSLARE 267
RL LG PS+E+ A ++S EL++I ME A+E
Sbjct: 118 RLTAHLGHRPSLERWATEAGVTVADLKPIMAEGKREWAKVAKLSVEELETIQMEGIRAKE 177
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 178 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 237
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG T +++ IA+ L+M+ +VR
Sbjct: 238 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTATMEDIAKELDMTPPQVREV 297
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIV 444
+ + SL+ + G+ + + D + P + AL+ ++ +L +
Sbjct: 298 LLRVPRSVSLETKV--------GKEKDTELGDLLETDDITPEDTLMREALRRDLQQL-LA 348
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L RER++I++ +GL D + + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 349 DLTSRERDVIQMRFGLGDGQPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRD 408
Query: 504 ML 505
L
Sbjct: 409 YL 410
>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 = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/316 (33%), Positives = 182/316 (57%), Gaps = 28/316 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LLT V L+K+I+ G+ HKL A+ R +L
Sbjct: 91 YLRDIGKVALLTAEGEVDLAKRIEAGV-FAAHKL-----------ATATGATTPRERRDL 138
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ + ++A+ +LV +N+RLV+S+A+RY + G D+VQ G +GL+R +EKFD +KGF
Sbjct: 139 EAVEADGNIAKRRLVEANLRLVVSVAKRYVSRGMPFLDVVQEGNLGLIRAVEKFDYAKGF 198
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 374
K STY WWIRQ +SR+L + +RT+R+P HL E + L+R + + E G PS + +A
Sbjct: 199 KFSTYATWWIRQAISRSLADQARTIRIPVHLVEIINRLVRVQRQLVSELGRDPSPEELAA 258
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVD 430
++++ ++VR ++ + RE SL+ GE ++ D +E++ P+
Sbjct: 259 EMDLTPQRVR-------EILMISREPV-SLDTPIGEDASAHFGDL-IEDSDAVVPFEAAT 309
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
+++++ ++ TL +RER+++RL YGL D T E++ G++RER+RQ+ AL
Sbjct: 310 VGLFQEQLDA-VLRTLPDRERQVVRLRYGLTDGRPRTLEEVGHEFGVTRERIRQIESKAL 368
Query: 490 EKLKHAARKKKMEAML 505
KL+H +R +K+ L
Sbjct: 369 AKLRHPSRSEKLHGYL 384
>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 = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ +L++RLG P+ + A ++
Sbjct: 63 EDSIRVYLQEIGRIRLLRAEEEIELARKIADLLELERIYEQLRKRLGRFPNNREWAEAVE 122
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 123 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 182
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 183 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 242
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 243 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 292
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 293 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 351
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 352 IEAKALRKLRHPNR 365
>gi|9837536|gb|AAG00589.1|AF288784_1 SigC [Synechococcus elongatus PCC 7942]
Length = 398
Score = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 175/314 (55%), Gaps = 35/314 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILM--------ECSL----- 264
+K + L + + RL +LG PS E A + S EL+ L C L
Sbjct: 90 LKDYVDLQEGRDRLTAQLGHRPSFEAWAKIVDCSLTELRQALQLGLHRWAEVCQLDLEEL 149
Query: 265 ---------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
A++ ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 150 KQVCKEGQRAKDHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 209
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +++ IA+
Sbjct: 210 RFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLTRIKKAQRKIAQTKGRTANLEEIAQ 269
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
L M+ +VR + K SL+ G+ + + D + P +
Sbjct: 270 ELEMTPDQVREVLLRVPKSISLETRV--------GKEKDTELGDLLETTDFTPEERLTQE 321
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L +++ +L++ L RER++IR+ +GL D + + +I + + LSRERVRQ+ AL+K
Sbjct: 322 SLSNDLQRLLL-ELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLSRERVRQIEAKALQK 380
Query: 492 LKHAARKKKMEAML 505
L+H R+ ++ L
Sbjct: 381 LRHPRRRNQIRDYL 394
>gi|17158751|ref|NP_478262.1| transcription initiation factor sigma [Nostoc sp. PCC 7120]
gi|464687|sp|Q03065.1|RPSB_ANASP RecName: Full=RNA polymerase sigma-B factor
gi|424021|pir||B47017 probable transcription initiation factor sigma SigB - Anabaena sp
gi|142112|gb|AAA22046.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
gi|17134700|dbj|BAB77258.1| transcription initiation factor sigma [Nostoc sp. PCC 7120]
Length = 332
Score = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/292 (33%), Positives = 171/292 (58%), Gaps = 11/292 (3%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL+H + + +++++ + + K L E+L EP++++ A +++ L L + +
Sbjct: 37 LLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVLLQQLSQGQI 96
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+K STY YWW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G V IA+ LN+ ++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLEPSQI 216
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + + SLD G +T + D+ + +P + L +++ L
Sbjct: 217 REYLQLVRQPVSLDMRI-----GFEQDTQLQDLLKDDGM--SPERYAERELLYQDIHNL- 268
Query: 443 IVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLK 493
+ L +++E++ L +GL C LT IS+R+G+SRERVRQV AL L+
Sbjct: 269 LAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQALTLLR 320
>gi|383647771|ref|ZP_09958177.1| RNA polymerase sigma factor [Streptomyces chartreusis NRRL 12338]
Length = 430
Score = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 109/317 (34%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + KLRL L QLA
Sbjct: 134 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLAPDLDS-----QLAL------ 181
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 182 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 240
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 241 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEE 300
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 301 VAAHLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVES 352
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 353 AAFLLLKEHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 412
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 413 LNKLRDHAFADQLRGYL 429
>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 = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 182/310 (58%), Gaps = 22/310 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH + + L ++++ + + + + +L+ + G +P+ E+LA SL +S
Sbjct: 15 VRSYLKEISRIPLLTHEQEITLGRQVQELICIQETEQKLELKNGIKPTQEELANSLDLSI 74
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+++ ++ A+E++V SN+RLV+SIA++Y ++ DLVQ G IGL+RG+EKFD +
Sbjct: 75 NQVKRKIIHGKRAKEQMVSSNLRLVVSIAKKYTKRSMELLDLVQEGTIGLIRGVEKFDPT 134
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ A+ L + G TP+V
Sbjct: 135 RGYKFSTYAYWWIRQGITRAISEQSRTIRLPIHITEELNKLKKAQRDLSQSLGRTPTVIE 194
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSL-----DREAFPSLNGLPGETHHSYIADNRVENNPW 426
+A+ + +++K+V+ + SL D + L LP E P
Sbjct: 195 LAKMIKLTEKEVKELLCHAKQPVSLEMKIGDGDDTVLLELLPSEIEL-----------PE 243
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV- 484
V+ L+ ++ L + L E + I+++ YG D E LT I + +G+SR+RVR +
Sbjct: 244 EYVNRKCLRRDLLAL-VEQLPEIQVRILKMRYGFDSTEPLTLTGIGRVLGMSRDRVRNLE 302
Query: 485 --GLVALEKL 492
G+ L+KL
Sbjct: 303 RDGINRLQKL 312
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 180/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L+E+LG S ++A+ ++ +
Sbjct: 91 AFFKEMARYPLLKPDEEVELARRVRFLEEVKDLQAALEEQLGHSVSKSEVASKFDLNEKQ 150
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 151 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 210
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 211 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEVEMA 270
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 271 EFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 325
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 326 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 385
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 386 RRPHIAKRLKGWLI 399
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/302 (34%), Positives = 174/302 (57%), Gaps = 35/302 (11%)
Query: 230 RLKERLGCEPSMEQLAASLRI----------------------SRPELQSILMECSLARE 267
RL +LG PS+E+ AA+ + S EL+ I + + A+E
Sbjct: 121 RLVSQLGHRPSLERWAATAGVEVSDLKPILAAGKQRWAELAGLSVKELEQIQSQGNRAKE 180
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 181 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 240
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG T +++ IA L M++++VR
Sbjct: 241 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTATIEDIALELEMTKEQVREV 300
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIV 444
+ + SL+ + G+ + + D E +P + AL+ ++ +L +
Sbjct: 301 LLRVPRSVSLEIKV--------GKEKDTELGDLLETEETSPEEVLMREALQRDLQQL-LA 351
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L RER++IR+ +GL D + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 352 DLTSRERDVIRMRFGLGDGHPYSLAEIGRALELSRERVRQIEAKALQKLRQPKRRNRVRD 411
Query: 504 ML 505
L
Sbjct: 412 YL 413
>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 = 95/243 (39%), Positives = 146/243 (60%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR+ L+ +N+RLV+SIA++Y + G M DLVQ G IGL+R +EKFD +KG K STY WW
Sbjct: 165 ARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWW 224
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP H+ E + ++ +L++ P+ + IA+ + +S KV
Sbjct: 225 IRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREPTPEEIADAMGISSTKV 284
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R EA SL+ G G+ +I D+R+ + P L++++ + ++
Sbjct: 285 RRTLEASMHPLSLEMPVGQEGEGRMGD----FIEDDRI-STPAEAAAASMLREQLEE-VL 338
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L ERER+II+L YGL D T E++ G++RER+RQ+ VAL KL+H KK+
Sbjct: 339 QKLPERERKIIQLRYGLKDGRYRTLEEVGMEFGITRERIRQIEAVALRKLRHPHLGKKLR 398
Query: 503 AML 505
L
Sbjct: 399 GYL 401
>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 (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 105/322 (32%), Positives = 186/322 (57%), Gaps = 24/322 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I++ ++ Y+K + LLT + + L++ ++ G + L + + +L+ +
Sbjct: 218 IEDPVRMYLKEIGKVPLLTADQEIDLAQAMEAGADAEKE-------LADDKDVNKLSDA- 269
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
+ EL +I+ E A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EK
Sbjct: 270 --RKKELNAIIYEGEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEK 327
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P
Sbjct: 328 FDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREP 387
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--- 424
+ +A+ +NM ++VR ++ + +E SL GE S++ D ++N
Sbjct: 388 LPEEVAKEMNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPV 439
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 483
P LK+++ + ++ TL ERE++++RL +GLD T E++ K ++RER+RQ
Sbjct: 440 PADAAAFTLLKEQLVE-VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQ 498
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ AL KL+H +R +K++ L
Sbjct: 499 IEAKALRKLRHPSRSRKLKDYL 520
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 176/316 (55%), Gaps = 13/316 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L++ I+ +++ + + +E G P+ +LA +L ++ +
Sbjct: 57 AFFKEMARYPLLKPDEEVELARHIQQLNEIEELRAQFEEEHGRRPNKAELADALGLTERQ 116
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 117 LEQRLHRSQVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 176
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVD-RIA 373
+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ A+ L P + +A
Sbjct: 177 YKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRRDLKRPPTEAELA 236
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVD 430
L +++ E + ++ + R++ SLN G + + D +NN P +
Sbjct: 237 TVLEITE-------EQLQQLLQVRRQSL-SLNVRVGREEDTELVDLLEDNNSRSPEAQMS 288
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 489
+ ++ E+ +++ L ERE+EI+ L YG++ E T E++ LSRERVRQ+ A+
Sbjct: 289 ERMMRQEIAEVLSEVLTEREKEIVCLRYGIETGETHTLEEVGNIFNLSRERVRQIQTRAM 348
Query: 490 EKLKHAARKKKMEAML 505
KL+ ++++ L
Sbjct: 349 RKLRRPQVARRLQGWL 364
>gi|56752354|ref|YP_173055.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus
PCC 6301]
gi|56687313|dbj|BAD80535.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus
PCC 6301]
Length = 320
Score = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 187/315 (59%), Gaps = 13/315 (4%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
G EKFD SKG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L ++ + L ++
Sbjct: 125 GFEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQL 184
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G + + +AE L + ++VR + + SLD + G +T + ++ ++
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLDVKV-----GDSQDTELQELLEDE-QS 238
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
+P V+ +L+ ++ L + L +++ +I L YGLD+ + L+ + +R+ +SRERVR
Sbjct: 239 SPSDYVEQESLRRDLRNL-MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVR 297
Query: 483 QVGLVALEKLKHAAR 497
++ A++ L+ +R
Sbjct: 298 KLERQAMDHLRRRSR 312
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 180/316 (56%), Gaps = 13/316 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L++++K + ++ + RL+ + +P+ ++A L +S +
Sbjct: 76 AFFKEMARYPLLKPEEEVELARRVKFIVEFEEIQQRLQAEIKRQPNKAEVATLLGMSERQ 135
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 136 LEHRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRAAEKFDPDKG 195
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L+++ PS +A
Sbjct: 196 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQQLQRNPSEVELA 255
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVD 430
++L +S + +R ++ L R++ SLN G+ + + D + +P +
Sbjct: 256 QFLEISAEHLR-------QLLQLRRKSL-SLNHRVGKEEDTELVDLLEDEDSQSPEQQMS 307
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
+ ++ E+ ++ L RE+++I L YGL E T E++ LSRERVRQ+ A+
Sbjct: 308 ETMMRQEIWDVLGDVLTPREKDVISLRYGLITSEPCTLEEVGSIFNLSRERVRQIQSKAM 367
Query: 490 EKLKHAARKKKMEAML 505
KL+ K+++ L
Sbjct: 368 RKLRRPQIAKRLKGWL 383
>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 = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 89/240 (37%), Positives = 151/240 (62%), Gaps = 8/240 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGFK STY WW
Sbjct: 155 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 214
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +AE L + +KV
Sbjct: 215 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAEKLELPVEKV 274
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
++ E SL+ + G+ ++ D++ NP+ LK+++++ ++
Sbjct: 275 KSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-ANPYDATTRILLKEQLDE-VL 328
Query: 444 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 329 KTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLE 388
>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: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
E+ E A+ KL N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +
Sbjct: 340 EMNERFKEYEKAKRKLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEWRR 399
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDRI 372
GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + +RN K L+EKG P+++
Sbjct: 400 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVNKKLLQEKGREPTIEET 459
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGV 429
A N+S ++ R + SLDR GE+ SY D + NP +
Sbjct: 460 ARAANISIEETRRVMKISRHPISLDRPV--------GESEDSYFGDFIEDTTAENPINSA 511
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
LKD++++ ++ TL REREII+L YGL D T E++ + ++RERVRQ+ A
Sbjct: 512 TQEMLKDKIDQ-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKA 570
Query: 489 LEKLKHAARKKKMEAML 505
+ 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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGFK STY WW
Sbjct: 155 AKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGFKFSTYATWW 214
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +AE L + +KV
Sbjct: 215 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELAEKLELPVEKV 274
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
++ E SL+ + G+ ++ D++ NP+ LK+++++ ++
Sbjct: 275 KSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-ANPYDATTRVLLKEQLDE-VL 328
Query: 444 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 329 KTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRRKKLE 388
>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 = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 180/307 (58%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH + + KK+K +L + K L ++LG EP+ + A + ++
Sbjct: 11 VRTYLKEIGRVPLLTHEQEISYGKKVKQLTTLKEVKESLVQQLGREPTFSEWATASCLTD 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+S + A+ K+V +N+RLV+++A++Y ++ DL+Q G IGL RG+EKFD +
Sbjct: 71 SQLKSSIAVGESAKRKMVEANLRLVVAVAKKYIKRNLELLDLIQEGTIGLQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G T ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRTATISE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A LN++ ++R E + SL+ G+ + + + + P G +D
Sbjct: 191 LAIELNLTPDQLREYFEQARQPLSLELRV--------GDNKDTELVELLEDTGP--GPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ ++ ++ K + L ++R+++RL YGL + E +T I + + +SRERVRQ+
Sbjct: 241 FVNQSLMQLDLEKF-MDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIER 299
Query: 487 VALEKLK 493
A+ KL+
Sbjct: 300 EAIAKLR 306
>gi|22297808|ref|NP_681055.1| RNA polymerase sigma factor SigD [Thermosynechococcus elongatus
BP-1]
gi|22293985|dbj|BAC07817.1| group2 RNA polymerase sigma factor [Thermosynechococcus elongatus
BP-1]
Length = 315
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 99/303 (32%), Positives = 178/303 (58%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + V K+++ ++++ + +L L EP+ + AA+ IS
Sbjct: 8 VRTYLREIGRVPLLTHEQEVIYGKQVQQLAAMNEIREKLAAELNREPTRAEWAAAANISE 67
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL++I+ A+ K+V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 68 GELETIIENGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 127
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L ++ G +++
Sbjct: 128 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAATINE 187
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L ++ +VR E + SLD + + GE + D+ + +P
Sbjct: 188 LAAELELTPAQVREYLERARQPLSLDVRVGDNQDTELGE----LLEDSSI--SPEEFATQ 241
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
L+ ++ +L + L ++R ++ L +GL+ + LT + + + +SRERVRQ+ AL
Sbjct: 242 SLLRSDLERL-MAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRERVRQIEREALS 300
Query: 491 KLK 493
KL+
Sbjct: 301 KLR 303
>gi|225450015|ref|XP_002272444.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 426
Score = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 110/300 (36%), Positives = 161/300 (53%), Gaps = 8/300 (2%)
Query: 199 GVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSI 258
G +LT E +K L+ + R+ E EP+ Q A ++ I R L +
Sbjct: 123 GAARSAVLTPREEAEFCLCLKEEAGLEAARRRIAETREHEPTSNQWAEAVGIKRSSLDKM 182
Query: 259 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 318
L +RE++ S RLV+SIA RY G + DL+Q G IGLLRG E+FD +G+K+S
Sbjct: 183 LCNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLS 242
Query: 319 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLN 377
TYVYWWIRQ + RA+ SR +RLP + E + I A+ L + P+ D IAE+++
Sbjct: 243 TYVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFID 302
Query: 378 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDE 437
++ VR +E S+D +A S G I E P V +K E
Sbjct: 303 VNVSTVRLVSERSRTPISVD-QAVTS----QGCMTLQEIIPGPDETTPQKMVKRQLMKQE 357
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
V + + TL ERE I+RLY+G++ E L++E+I + + LSRERVRQ+ +AL KL+ +
Sbjct: 358 VER-ALNTLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQTS 416
>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 = 166 bits (420), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L+ LG PS ++ A +
Sbjct: 66 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRNLGRYPSDKEWAQQVG 125
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 126 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 185
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 186 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 245
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 246 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 295
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 296 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 354
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 355 IEAKALRKLRHPNR 368
>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 = 2e-38, Method: Compositional matrix adjust.
Identities = 92/242 (38%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++MS KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMSPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL +E+L P ++ A
Sbjct: 90 FRQYLREIGRIPLLTAAEEVELARRVEAGLFA-------EEKLSSTPDLDSRLAG----- 137
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 138 -DLDRLVVSGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 196
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 197 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPAE 256
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ +V G+V L +E SL+ GE + D + + V+
Sbjct: 257 VAAQLDLTPDRV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 308
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 309 AAFLLLREHLEAVLSTLGERERKVVQLRYGLMDGRPRTLEEIGRIFGVTRERIRQIESKT 368
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 369 LNKLRDHAFADQLRGYL 385
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKMEAML 505
K+++ +
Sbjct: 361 KQLKDFM 367
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L+ LG PS ++ A +
Sbjct: 65 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRSLGRYPSDKEWAEQVG 124
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 125 MELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 184
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 185 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 244
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 245 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 294
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 295 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 353
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 354 IEAKALRKLRHPNR 367
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 111/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + +E G P + A +
Sbjct: 90 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELADQYEEDHGKYPDNREWAVLVD 149
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 150 MPPIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 209
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 210 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 269
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 270 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 319
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 320 PDQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 378
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 379 IEAKALLKLRHPNR 392
>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 (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 108/323 (33%), Positives = 187/323 (57%), Gaps = 33/323 (10%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + ++ Y+K + +LLT E V L+ +R++E + E +LA +
Sbjct: 93 INDPVRMYLKEIGRVDLLTGKEEVDLA-------------IRIQESIEAEA---ELAETN 136
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
++ P++ + ++ A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EK
Sbjct: 137 EMT-PKIDAAIIRGENAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEK 195
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P
Sbjct: 196 FDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREP 255
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
S + I E ++++ +KVR ++ + +E SL GE S++ D +E++
Sbjct: 256 SPEEIGEEMDLTPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQ 306
Query: 428 GVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
D A LK+++ ++ TL +RE ++RL +GLD T E++ K G++RER+R
Sbjct: 307 SPSDHAAYELLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIR 365
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ AL KL+H +R K+++ L
Sbjct: 366 QIEAKALRKLRHPSRSKRLKDFL 388
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKMEAML 505
K+++ +
Sbjct: 361 KQLKDFM 367
>gi|254409611|ref|ZP_05023392.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196183608|gb|EDX78591.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 374
Score = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 178/316 (56%), Gaps = 13/316 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E + L+ +++ + +D+ RL + LG +P+ +LA +L ++ +
Sbjct: 66 AFFKEMARYPLLKPEEEIELATQVQFLVEMDEMTERLHQELGRKPTNAELAQALDLTERQ 125
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
++ L +++ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD +KG
Sbjct: 126 FENRLYRGQISKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPAKG 185
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ + L++K TP +A
Sbjct: 186 YKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKVQRELKQKLQRTPDETELA 245
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVD 430
E L++S+ +R + + SLN G+ + + D +N+ P +
Sbjct: 246 EALDISRTNLRQLLQLRRRSL--------SLNHRVGKGEDTELVDLLEDNDLHLPEQQMS 297
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
+ ++ E++ ++ L ERE+++I L YGL E T E++ LSRERVRQ+ A+
Sbjct: 298 ESMMRQEISDVLSDVLTEREKDVISLRYGLATPESYTLEEVGSMFNLSRERVRQIQSKAM 357
Query: 490 EKLKHAARKKKMEAML 505
KL+ ++++ L
Sbjct: 358 RKLRRPQVARRLQGWL 373
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 108/317 (34%), Positives = 182/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + KLRL P ++ A
Sbjct: 94 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLT------PDLDSRLAH----- 141
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 142 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 200
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 201 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGREPTPEE 260
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ ++V G+V L +E SL+ GE + D + + V+
Sbjct: 261 VAAHLDLPPERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 312
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 313 AAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKT 372
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 373 LNKLRDHAFADQLRGYL 389
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 175/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LL H + + K+++ +SL K +L +L +P+ + A +++S
Sbjct: 25 VRTYLHEIGRIPLLDHEQEINFGKQVQQMMSLLTAKEKLVIQLNRQPTQLEFAEYIKLSE 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL L + A+E+++ +N+RLV+SIA++Y D DL+Q G +GL RG+EKFD +
Sbjct: 85 SELLQQLQQGYQAKEQMIRANLRLVVSIAKKYQRRNLDFLDLIQEGSLGLERGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ E RT+RLP HL E+L I+ + L +K G TPS
Sbjct: 145 RGYKFSTYAYWWIRQAITRAIAEQGRTIRLPIHLTEKLNKIKRTQRELAQKLGHTPSTTE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L++ K++R+ + SL+ P + H + D+ + +P D
Sbjct: 205 IAAELSLDPKEIRDYLLLARQPLSLELRVGPERDT----ELHDMLEDDGL--SPESYADQ 258
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVALE 490
L+ ++ L + L ++REI+ L +GL E L+ +I +R+G+SRERVRQ+ L AL
Sbjct: 259 SFLQQNIHDL-LSKLTAQQREILTLRFGLTNENTLSLSEIGQRMGISRERVRQLELQALM 317
Query: 491 KLK 493
L+
Sbjct: 318 TLR 320
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
+ S A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ +EKF+ +G+K STY
Sbjct: 335 QASRAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVEKFEYERGYKFSTY 394
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + +AE +
Sbjct: 395 ATWWIRQAITRAIADQARTIRIPVHMIETINKLLRTSRYLVQEIGREPTPEELAEKMEYP 454
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 436
+KVR KV + +E SL GE SY+AD ++ ++P V++ L
Sbjct: 455 LEKVR-------KVLKIAKEPI-SLETPIGEEEDSYLADFIEDKKISSPTEAVENLNLA- 505
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
E+ + ++ TL RE ++IRL +G+ +K T E++ K+ ++RER+RQ+ AL KL+HA
Sbjct: 506 EITRKVLSTLTPREEKVIRLRFGIGEKTDHTLEEVGKKFMVTRERIRQIEAKALRKLRHA 565
Query: 496 ARKKKMEAM 504
+R K++++
Sbjct: 566 SRLKRLQSF 574
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 141 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 200
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ K
Sbjct: 201 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 260
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 261 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 312
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 313 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 371
Query: 499 KKMEAML 505
K+++ +
Sbjct: 372 KQLKDFM 378
>gi|455652448|gb|EMF31078.1| RNA polymerase sigma factor [Streptomyces gancidicus BKS 13-15]
Length = 428
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 108/317 (34%), Positives = 180/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + KLRL P ++ A
Sbjct: 132 FRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKLRLT------PDLDSRLAH----- 179
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 180 -DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 238
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+GFK STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 239 RGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPQE 298
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L + ++V G+V L +E SL+ GE + D + + V+
Sbjct: 299 VAAHLELPPERV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 350
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 351 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKT 410
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 411 LNKLRDHAYADQLRGYL 427
>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 = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 182/318 (57%), Gaps = 24/318 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + ++ Y+K + ELL+ E +R +K I+ GL D+ LK + E+
Sbjct: 94 INDPVRMYLKEIGKVELLSADEEIRYAKDIEAGLMADEQIKDLKAEDALDADTER----- 148
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
+L+ ++M+ +++ +LV +N+RLV+SIA+R+ G DL+Q G +GL++ ++K
Sbjct: 149 -----QLKDLIMKGEISKMRLVEANLRLVVSIAKRHVGRGMLFLDLIQEGNMGLMKAVDK 203
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + +E G P
Sbjct: 204 FDYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRQLTQELGRDP 263
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN---N 424
+ IA+ ++++ KVR ++ + ++ SL GE S + D ++ +
Sbjct: 264 LPEEIAKKMDITPDKVR-------EILKISQDPI-SLESPVGEEDDSNLGDFIPDSETIS 315
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
P + LK E+N+ ++ TL +RE ++RL +GL D T E++ K G++RER+RQ
Sbjct: 316 PAEFASNELLKQELNE-VLETLTDREERVLRLRFGLNDGRTRTLEEVGKEFGVTRERIRQ 374
Query: 484 VGLVALEKLKHAARKKKM 501
+ AL KL+H +R KK+
Sbjct: 375 IEAKALRKLRHPSRSKKL 392
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 101/287 (35%), Positives = 169/287 (58%), Gaps = 30/287 (10%)
Query: 225 DDHKLRLKERLGCEPSM-----EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMS 279
D ++ LKE +G P + ++LA ++ PE A+++L +N+RLV+S
Sbjct: 100 DPVRMYLKE-IGVVPLLTNEEEQELALAVEAGDPE----------AKQRLAEANLRLVVS 148
Query: 280 IAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRT 339
IA+RY G DL+Q G +GL++ ++KFD SKGFK STY WWIRQ ++RA+ + +RT
Sbjct: 149 IAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQART 208
Query: 340 LRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KVR ++ + +
Sbjct: 209 IRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKVR-------EILKIAQ 261
Query: 399 EAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIR 455
E SL GE S++ D + V NP L++++++ ++ TL +RE ++R
Sbjct: 262 EPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE-VLDTLTDREENVLR 319
Query: 456 LYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
L +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K +
Sbjct: 320 LRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKPL 366
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 101/287 (35%), Positives = 169/287 (58%), Gaps = 30/287 (10%)
Query: 225 DDHKLRLKERLGCEPSM-----EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMS 279
D ++ LKE +G P + ++LA ++ PE A+++L +N+RLV+S
Sbjct: 100 DPVRMYLKE-IGVVPLLTNEEEQELALAVEAGDPE----------AKQRLAEANLRLVVS 148
Query: 280 IAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRT 339
IA+RY G DL+Q G +GL++ ++KFD SKGFK STY WWIRQ ++RA+ + +RT
Sbjct: 149 IAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQART 208
Query: 340 LRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KVR ++ + +
Sbjct: 209 IRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKVR-------EILKIAQ 261
Query: 399 EAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIR 455
E SL GE S++ D + V NP L++++++ ++ TL +RE ++R
Sbjct: 262 EPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE-VLDTLTDREENVLR 319
Query: 456 LYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
L +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K +
Sbjct: 320 LRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKPL 366
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL ++L EP + A +
Sbjct: 62 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLSDQLEREPQDSEWATEVN 121
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 122 MPLQAFRHRLYVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 181
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 182 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPT 241
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA+ + M+ +K+R F P SL G+ S + D +E +
Sbjct: 242 EEEIADRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 291
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 292 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 350
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 351 IEAKALRKLRHPNR 364
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 175/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 327
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 328 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 373
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 374 IRQIEAKALRKLRHPNR 390
>gi|427735326|ref|YP_007054870.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427370367|gb|AFY54323.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 332
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 99/291 (34%), Positives = 167/291 (57%), Gaps = 13/291 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
Y + +V LLT E + L+K+++ +SL K L E+L +P++++ + +++ E
Sbjct: 25 SYFQDIVRIPLLTSEEEIFLAKQVQQRISLLALKEELSEKLQRQPTLQEWSVKAQLNDSE 84
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L + + +A++K++ +N+RLV++IA++Y D DL+Q G +GL R ++KF S G
Sbjct: 85 LLEQINQGQIAKQKMIAANLRLVVTIAKKYQKRNLDFPDLIQEGTLGLERAVDKFKPSLG 144
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQG++RA+ + SRT+RLP H+ E+L I+ + L +K G P+V IA
Sbjct: 145 YKFSTYAYWWIRQGITRAISQQSRTIRLPIHITEKLNKIKRVQRELSQKLGRNPTVTEIA 204
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGVDD 431
E L ++R K SLD + G ++ + D V +P+ V
Sbjct: 205 EALGFKPSQIRECLRLARKPMSLDVKV--------GTEQNTQLQDLLVSESYSPFDYVVK 256
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERV 481
+LK V L + L +++EI+ L +GL +E LT + IS+R G+ ++RV
Sbjct: 257 ESLKQTVQDL-LSKLSPQQQEILTLRFGLTGEEELTLKQISQRTGICQDRV 306
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 175/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 327
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 328 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 373
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 374 IRQIEAKALRKLRHPNR 390
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 114/327 (34%), Positives = 168/327 (51%), Gaps = 59/327 (18%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT + V L+K+I+ GL H L K+RLG + +L
Sbjct: 30 YLNGIGKTALLTAEDEVELAKRIEAGLYAQ-HLLDTKKRLG------------EARKKDL 76
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
I+ E + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 77 AVIVREGNAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 136
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLE 361
K STY WWIRQ ++R + + SRT+RLP H LH+RLG + + E
Sbjct: 137 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQRLGREASDEELAE 196
Query: 362 EKGVTPSVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
E G+ V++I + L+ S+ V EA F D EA + N + E HS
Sbjct: 197 ESGI--PVEKIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSAENAVIAELLHSD 254
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRI 474
+ + ++ TL ERE+++IRL YGLD + T + I K
Sbjct: 255 V-----------------------RSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLF 291
Query: 475 GLSRERVRQVGLVALEKLKHAARKKKM 501
GLSRERVRQ+ + KL+H R +++
Sbjct: 292 GLSRERVRQIEREVMAKLRHGDRAERL 318
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 101/327 (30%), Positives = 188/327 (57%), Gaps = 15/327 (4%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRL 231
+Q+ K L + P + ++ Y++ + +LLT + V +++++ ++L K L
Sbjct: 11 VQKTKKKSLAADKKPRATDDIVRSYLQEIGRVDLLTREQEVIFAQQVQLMMNLLAAKEEL 70
Query: 232 KERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
+L EP++++ A + + L+ L + A++K++ +N+RLV+++A++Y + +
Sbjct: 71 AVKLDHEPTLQEWADRVELGAEVLELQLSQGHQAKQKMIQANLRLVVAVAKKYQHRNLEF 130
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
DL+Q G +GL RG++KFD + G+K STY YWWIRQG++RA+ + RT+RLP H+ E+L
Sbjct: 131 MDLIQEGTLGLERGVDKFDPALGYKFSTYAYWWIRQGITRAIAQQGRTIRLPIHVFEKLN 190
Query: 352 LIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 410
I+ + L ++ G P+ IA L+++ +VR + L R+ F SL GE
Sbjct: 191 KIKRVQRELSQQLGRVPTTAEIANALSLTPSQVR-------ECLYLARQPF-SLEARVGE 242
Query: 411 THHSYIADNRVENNPWHGVDDWALKDEVN---KLIIVTLGEREREIIRLYYGL-DKECLT 466
+ + D ++ P +D+A+++ ++ + ++ L ++REI+ L +GL D L+
Sbjct: 243 QQDTELQDILEDDGP--SPEDYAVEESLHQDLQDLLAKLSPQQREILTLRFGLTDGYELS 300
Query: 467 WEDISKRIGLSRERVRQVGLVALEKLK 493
I R+G+SRERVRQ+ AL L+
Sbjct: 301 LAQIGDRMGISRERVRQIEQKALSLLR 327
>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 = 106/317 (33%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+LG P ++ A
Sbjct: 134 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLGNTPDLDSELAL----- 181
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 182 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 240
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 241 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEE 300
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 301 VAAHLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 352
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 353 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 412
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 413 LNKLRDHAFADQLRGYL 429
>gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942]
Length = 384
Score = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 175/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 73 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 132
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 133 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 192
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 193 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 252
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 253 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLL 312
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ GV + TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 313 RED-LEGV-------------LSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRER 358
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 359 IRQIEAKALRKLRHPNR 375
>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 = 165 bits (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 114/327 (34%), Positives = 167/327 (51%), Gaps = 59/327 (18%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT + V L+K+I+ GL H L K+RLG + +L
Sbjct: 30 YLNGIGKTALLTAEDEVELAKRIEAGLYAQ-HLLDTKKRLG------------EARKKDL 76
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
I+ E + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 77 AVIVREGNAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 136
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNH--------------LHERLGLIRNAKLRLE 361
K STY WWIRQ ++R + + SRT+RLP H LH+RLG + E
Sbjct: 137 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQRLGREATDEELAE 196
Query: 362 EKGVTPSVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
E G+ V++I + L+ S+ V EA F D EA + N + E HS
Sbjct: 197 ESGI--PVEKIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEAMSAENAVIAELLHSD 254
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRI 474
+ + ++ TL ERE+++IRL YGLD + T + I K
Sbjct: 255 V-----------------------RSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLF 291
Query: 475 GLSRERVRQVGLVALEKLKHAARKKKM 501
GLSRERVRQ+ + KL+H R +++
Sbjct: 292 GLSRERVRQIEREVMAKLRHGDRAERL 318
>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 (418), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 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 = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
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 (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>gi|17231741|ref|NP_488289.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
gi|8489803|gb|AAF75759.1|AF262218_1 group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
gi|17133384|dbj|BAB75948.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
Length = 390
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 178/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L+ ++G P+ Q+A L I+ +
Sbjct: 82 AFFKEMARYPLLKPDEEVELARRVRFLEEVRDLQADLQLQIGQHPTKAQVAGQLEITEKQ 141
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 142 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 201
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS +A
Sbjct: 202 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMA 261
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L +S ++R + + SL+ G +T + ++ +P +++
Sbjct: 262 EALEISVPQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 316
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 317 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 376
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 377 RRPHIAKRLKGWLI 390
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>gi|443317112|ref|ZP_21046533.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783319|gb|ELR93238.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 327
Score = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 104/323 (32%), Positives = 181/323 (56%), Gaps = 18/323 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
S P + ++ Y+ + LLTH + + L K+++ ++L D K ++KE LG +PS
Sbjct: 9 SKAKPLFTADAVRTYLHEIGRVPLLTHEQEIVLGKQVQQFMTLLDLKTQMKESLGQDPSD 68
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
++ A + + L L E A+ +++ +N+RLV++IA++Y + DL+Q G +G
Sbjct: 69 QEWAGAAHLDTATLTQQLHEGEQAKRQMIEANLRLVVAIAKKYQKRNLEFLDLIQEGTLG 128
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
L RG+EKFD KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L
Sbjct: 129 LERGVEKFDPMKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELS 188
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+ G + +V IAE L + +VR + ++ R+ SL+ G+ + + +
Sbjct: 189 QTLGRSATVGEIAEALELEVTQVR-------EYLTMARQPI-SLDVRIGDNQDTELQE-- 238
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGE---REREIIRLYYGL-DKECLTWEDISKRIGL 476
+ + +D+ +++ + + I L E +++E+I L YGL D L+ + R+ +
Sbjct: 239 LLEDDTASPEDFTVRESLKQDIQTLLAELTPQQQEVITLRYGLNDGNELSLAKVGNRLNI 298
Query: 477 SRERVRQVGLVALEKLKHAARKK 499
SRERVRQ+ A LKH R+K
Sbjct: 299 SRERVRQLEQQA---LKHLRRRK 318
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 108/317 (34%), Positives = 175/317 (55%), Gaps = 23/317 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L+++L P + A ++
Sbjct: 71 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRESLQQQLDRTPQDAEWANAVN 130
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
++ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 131 MTLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 190
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 191 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 250
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIADNRV 421
+ IA + M+ +K+R ++ SL+ +E L GET +A N +
Sbjct: 251 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVAKNLL 310
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
+ + +D TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 311 REDLENVLD--------------TLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 356
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 357 IRQIEAKALRKLRHPNR 373
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 175/303 (57%), Gaps = 31/303 (10%)
Query: 214 LSKKIKTGLSLDDH-KLRLKE-----RLGCEPSMEQLAASLRISRPELQSILMECSLARE 267
L + G+SL+D ++ LKE LG E +E LA + + PE AR+
Sbjct: 90 LDLSVPEGVSLEDPVRMYLKEIGKIPLLGMEDEVE-LAKKMELGDPE----------ARK 138
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 139 RLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQ 198
Query: 328 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 386
++RA+ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA L++
Sbjct: 199 AITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARLDLP------- 251
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLII 443
E + ++ + +E SL GE S++ D ++N P L +++ + ++
Sbjct: 252 VERVSEIMKMSQEPV-SLETPIGEEEDSHLGDFIQDDNVLVPQDAAAFTLLHEQLME-VL 309
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+TL ERE++++RL +GLD T E++ K+ ++RER+RQ+ AL KL+H +R KK++
Sbjct: 310 LTLTEREQKVLRLRFGLDDGRPRTLEEVGKQFNVTRERIRQIEAKALRKLRHPSRSKKLK 369
Query: 503 AML 505
L
Sbjct: 370 DYL 372
>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 = 5e-38, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 156/254 (61%), Gaps = 15/254 (5%)
Query: 254 ELQSILMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + E L A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD S
Sbjct: 119 ELAVAVAEGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYS 178
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQ 238
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 428
IAE ++M+ KVR ++ + +E SL GE S++ D + V NP
Sbjct: 239 IAERMDMTPDKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDY 290
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
L++++++ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+
Sbjct: 291 TTRVVLREQLDE-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 488 ALEKLKHAARKKKM 501
AL KL+H +R K++
Sbjct: 350 ALRKLRHPSRSKQL 363
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 106/325 (32%), Positives = 186/325 (57%), Gaps = 23/325 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-CEPSMEQLAASLRIS 251
++ Y++ + LLTH + + L ++++ ++L++ + L R G PS +LA + +S
Sbjct: 22 VRSYLRDIGRVPLLTHEQEITLGRQVQELMALEEMEQELTMRAGGTAPSAAELAKAAGLS 81
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 82 PAVLKKRLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 141
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 142 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVT 201
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--PWH 427
+A Y+ + +++V++ L R P SL G+ + + D + P
Sbjct: 202 ELAGYVELPEEEVKDL---------LCRARQPVSLETKVGDGEDTELLDLLAGDGELPEE 252
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC------LTWEDISKRIGLSRERV 481
VD LK ++ L + L E + ++++ YGLD E ++ I+K +G+SR++
Sbjct: 253 RVDGECLKGDLRAL-LEQLPELQGRVLKMRYGLDPEGQGLTEPMSLSSIAKNLGMSRDKT 311
Query: 482 RQVGLVALEKLKHAARKKKMEAMLV 506
R + ALE ++ +R ++E LV
Sbjct: 312 RNLERKALEGIRSQSR--RLEGYLV 334
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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 (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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 (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKM 501
K++
Sbjct: 361 KQL 363
>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 = 165 bits (418), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 181/318 (56%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT E V L+++++ GL + E+L P ++ QLA
Sbjct: 132 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAE-------EKLSSTPDLDSQLAL----- 179
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 180 --DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 237
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 238 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 297
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L++ A E + +V L +E SL+ GE + D + + V+
Sbjct: 298 EVAAHLDL-------APERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 349
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 350 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRARTLEEIGRIFGVTRERIRQIESK 409
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 410 TLNKLRDHAFADQLRGYL 427
>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: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL+ I E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 164 ELEQIQREGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 223
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ I
Sbjct: 224 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDI 283
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
A L M+ +VR + + SL+ + + GE + + P +
Sbjct: 284 ARELEMTSPQVREVLLRVPRSVSLETKVGKEKDTELGELLETD------DVTPEETLMRE 337
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L+ ++ +L + L RER++I++ +GL D + +I + + LSRERVRQ+ AL+K
Sbjct: 338 SLRRDLQQL-LADLTSRERDVIQMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQK 396
Query: 492 LKHAARKKKMEAML 505
L+ R+ ++ L
Sbjct: 397 LRQPKRRNRIRDYL 410
>gi|78780107|ref|YP_398219.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9312]
gi|78713606|gb|ABB50783.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9312]
Length = 344
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 184/307 (59%), Gaps = 16/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L + E G +PS+E+L++ L +S
Sbjct: 37 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTGDKPSIEELSSKLNLSI 96
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P ++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 97 PIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP+V
Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + ++ V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 217 LAKYVELPEEDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 268
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L+ L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 269 EMDCMRGDLHSLL-HQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 327
Query: 486 LVALEKL 492
L L +L
Sbjct: 328 LRGLRRL 334
>gi|411117480|ref|ZP_11389967.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
gi|410713583|gb|EKQ71084.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
Length = 407
Score = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 178/314 (56%), Gaps = 9/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+ +I+ +++ + +L + LG PS +LA ++ ++ +
Sbjct: 99 AFFKEMARYPLLKPDEEVELANQIRYLNEIEELRSQLTQELGRCPSKAELADAVGLTERQ 158
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 159 LEHQLHRSRVAKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRATEKFDPDKG 218
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQG++R + +SRT+RLP H+ E+L ++ A+ L+ K P+ +A
Sbjct: 219 YKFSTYAYWWIRQGITRTIANDSRTIRLPVHIVEKLNKLKGAQRDLKRKLNRNPTEAELA 278
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L ++ ++++N + + SL+ G +T + ++ +P + +
Sbjct: 279 EALEVTPEQLQNLQQVHRRSLSLNYRV-----GKDEDTELVDLLEDAETRSPESQMSETM 333
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEK 491
L+ E+ ++ L ERE++II L YGL +K C T E++ LSRERVRQ+ A+ K
Sbjct: 334 LRQEIWDVLGNVLTEREKDIISLRYGLSSNKPC-TLEEVGGLFNLSRERVRQIQSKAMRK 392
Query: 492 LKHAARKKKMEAML 505
L+ ++++ L
Sbjct: 393 LRRPQVAERLKGWL 406
>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 = 165 bits (417), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E L +P + A ++
Sbjct: 80 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLCEELERDPKDNEWANAVG 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 MPLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 260 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 175/303 (57%), Gaps = 31/303 (10%)
Query: 214 LSKKIKTGLSLDDH-KLRLKE-----RLGCEPSMEQLAASLRISRPELQSILMECSLARE 267
L + G+SL+D ++ LKE LG E +E LA + + PE AR+
Sbjct: 94 LDLSVPEGVSLEDPVRMYLKEIGKIPLLGMEDEVE-LAKKMELGDPE----------ARK 142
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 143 RLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQ 202
Query: 328 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 386
++RA+ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA L++
Sbjct: 203 AITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARLDL-------P 255
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLII 443
E + ++ + +E SL GE S++ D ++N P L +++ + ++
Sbjct: 256 VERVSEIMKMSQEPV-SLETPIGEEEDSHLGDFIQDDNVLVPQDAAAFTLLHEQLME-VL 313
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+TL ERE++++RL +GLD T E++ K+ ++RER+RQ+ AL KL+H +R KK++
Sbjct: 314 LTLTEREQKVLRLRFGLDDGRPRTLEEVGKQFNVTRERIRQIEAKALRKLRHPSRSKKLK 373
Query: 503 AML 505
L
Sbjct: 374 DYL 376
>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 = 6e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKM 501
K++
Sbjct: 361 KQL 363
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 184/307 (59%), Gaps = 17/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLTH E + +K+++ + L+ K +L+E+ E S + A + ++
Sbjct: 11 VRSYLKEIGRVPLLTHEEEIIYAKRVQKLVELEKCKHQLEEKTKTELSEAEWAKAANVTV 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ + +A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 AKLRKDVDAGEVAKRKMIEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E+L I+ A+ ++ ++KG + ++
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQIAQQKGRSATIAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L ++ ++VR E + SLD G+ + + + + + + +D
Sbjct: 191 LAEELELTPRQVREYLERARQPLSLDLRV--------GDNNDTELGE--LLEDSGQSPED 240
Query: 432 WA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+A L+ ++++L + L ++RE+I L +GL D + LT I + +SRERVRQ+
Sbjct: 241 YATYSSLQFDLDRL-MDDLTPQQREVISLRFGLTDGKPLTLSKIGVLLNISRERVRQIER 299
Query: 487 VALEKLK 493
AL KL+
Sbjct: 300 EALAKLR 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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 182/320 (56%), Gaps = 31/320 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRIS- 251
++ Y+K + LLT E V L+K+I+ GL + E+L+ + R++
Sbjct: 96 VRMYLKEIGKVPLLTAEEEVDLAKRIEAGLF----------------AAEKLSEARRVTV 139
Query: 252 --RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
R +L+++ + ++A+ KLV +N+RLV+SIA+RY G DL+Q G +GL+R +EKF
Sbjct: 140 ALRVDLEAVERDGNVAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 368
D +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+
Sbjct: 200 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ I + ++++ KVR + + SL+ GE S++ D + +
Sbjct: 260 PEEIGKEMDLTPDKVREIQKVSQEPVSLETPI--------GEEEDSHLGDFIEDTDAVVP 311
Query: 429 VD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 312 VDAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIE 371
Query: 486 LVALEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 372 SKTLSKLRHPSRSQKLRDYL 391
>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 (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT E V L+++++ GL + ERLG ++ A
Sbjct: 91 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAE-------ERLGTASGLDTRLAL----- 138
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 139 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 197
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ D
Sbjct: 198 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDE 257
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ A E + +V L +E SL+ GE + D + + V+
Sbjct: 258 VAAHLDL-------APERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 309
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 310 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 369
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 370 LNKLRDHAFADQLRGYL 386
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 150/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+M+++KV
Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 268 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADTNVLSPEGNVESVMLREHIDT 319
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 320 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 378
Query: 500 KMEAML 505
++ L
Sbjct: 379 RIRDFL 384
>gi|158337702|ref|YP_001518878.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158307943|gb|ABW29560.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 173/313 (55%), Gaps = 23/313 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ + Y++ + LL H E + K+++ ++L D K L+E L EP+ + A
Sbjct: 8 KDSITTYLREIGRFPLLNHEEEIIFGKQVQRFVALQDLKQDLQEHLDREPTQAEWADKAE 67
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
IS +LQ L A K+V SN+RLV+SIA++Y+ + DL+Q G IGL RG+EKF
Sbjct: 68 ISVSQLQKELKLGHKANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKF 127
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 368
D KG++ STY YWWIRQ ++RA+ E RT+RLP H++E+L +R + +L +K P+
Sbjct: 128 DPMKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPT 187
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL-------PGETHHSYIADNRV 421
V +A ++++ KK+ + + SLD + N P E+ +Y+ +
Sbjct: 188 VQELAVEMDLAPKKIEDYLNYARRSISLDIQIGDQQNTELWELLEDPNESPDTYVTAS-- 245
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+L+ ++ KL + L ++RE+I L YGL D+ LT + +R+ +SRE
Sbjct: 246 -----------SLRSDLAKL-LQDLSPQQREVITLRYGLIDQNPLTLAKVGERLNVSREW 293
Query: 481 VRQVGLVALEKLK 493
VR+V A + L+
Sbjct: 294 VRRVEREAFKILR 306
>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 = 6e-38, Method: Compositional matrix adjust.
Identities = 91/243 (37%), Positives = 151/243 (62%), Gaps = 14/243 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKM 501
K++
Sbjct: 361 KQL 363
>gi|302024138|ref|ZP_07249349.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05HAS68]
Length = 372
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 100/287 (34%), Positives = 169/287 (58%), Gaps = 30/287 (10%)
Query: 225 DDHKLRLKERLGCEPSM-----EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMS 279
D ++ LKE +G P + ++LA ++ PE A+++L +N+RLV+S
Sbjct: 100 DPVRMYLKE-IGVVPLLTNEEEQELALAVEAGDPE----------AKQRLAEANLRLVVS 148
Query: 280 IAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRT 339
IA+RY G DL+Q G +GL++ ++KFD SKGFK STY WWIRQ ++RA+ + +RT
Sbjct: 149 IAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQART 208
Query: 340 LRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ +KVR ++ + +
Sbjct: 209 IRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPEKVR-------EILKIAQ 261
Query: 399 EAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIR 455
E SL GE S++ D + + NP L++++++ ++ TL +RE ++R
Sbjct: 262 EPV-SLETPIGEEDDSHLGDFIEDEIIENPVDYTTRVVLREQLDE-VLDTLTDREENVLR 319
Query: 456 LYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
L +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K +
Sbjct: 320 LRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKPL 366
>gi|428205040|ref|YP_007100666.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428013159|gb|AFY91275.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 335
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 99/287 (34%), Positives = 174/287 (60%), Gaps = 19/287 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL+H + + K+++ ++L K L ++L EP++++ A + +S LQ L+
Sbjct: 39 LLSHEQEIVFGKQVQQMIALVTAKENLAKQLQREPTLQEWAELMHLSDKALQKQLLAGQQ 98
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K++ +N+RLV+++A++Y D DL+Q G +GL RG+EKFD ++GF+ STY YWW
Sbjct: 99 AKQKMIEANLRLVVAVAKKYQKRNLDFLDLIQEGTLGLERGVEKFDPTRGFRFSTYAYWW 158
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQGV+RA+ + SRT+RLP H+ E+L I+ + L +K G TP+ IAE +++ ++V
Sbjct: 159 IRQGVTRAIAQQSRTIRLPIHMTEKLNKIKRTQRELSQKLGRTPTSIEIAEAIDLQPEQV 218
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV--DDWALKDEVNKL 441
R + L R SL G+ + + N ++++ G+ + +A+++ + +
Sbjct: 219 R-------ECLLLARHPI-SLEARIGDEQDTEL-QNILQDD---GLLPESYAVRESIRES 266
Query: 442 ---IIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
I+ L ++REI+ L +GL D L+ I +R+G+SRERVRQ+
Sbjct: 267 VQNILSKLPTQQREILTLRFGLADGNELSLAQIGQRMGISRERVRQL 313
>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 = 6e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>gi|299472559|emb|CBN79861.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus
siliculosus]
Length = 694
Score = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 176/321 (54%), Gaps = 10/321 (3%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ V +LL E + L ++I+ G+S ++ + L+ G EPS E+ A +L + R EL
Sbjct: 54 YLRTVAKVDLLKPHEEIVLGRQIQKGVSYENTRDHLQLMRGYEPSEEEWAVALGMDREEL 113
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
L S A+ ++ +N+RLV+S+A+RY DL+Q G GL++ EKFD +GF
Sbjct: 114 VKELSRASKAKMAMLAANLRLVVSVAKRYRFQKLSFQDLIQEGTFGLVKAAEKFDPERGF 173
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWI+Q + R + + SR +RLP H+H+ L +R A L + +K G P+ D +AE
Sbjct: 174 KFSTYATWWIKQSIMRGIADQSRIIRLPVHVHDFLNRVRKATLEMTDKNGKLPTDDELAE 233
Query: 375 YLNMSQKKVRNATEAIGKVFSLD--REAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
+L +S +++ +A S++ R + PG+ + E P
Sbjct: 234 HLEVSAVRIQYYRDAAQATLSMEAPRNIASKTSTSPGKKVEMGQGVSGPEKTPDKQAQSD 293
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEK 491
+K +V +L++ TL RE+E+++ +GL T E++ + L+RERVRQ+ AL K
Sbjct: 294 VMKQKVTELLM-TLSIREQEVVKARFGLGGALPRTLEEVGRDFRLTRERVRQIEARALHK 352
Query: 492 LK-----HAARKKKMEAMLVK 507
L+ + R K++ MLV+
Sbjct: 353 LRQPYRNYRVRDFKLDQMLVQ 373
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 109/317 (34%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + KLRL L QLA
Sbjct: 125 FRQYLREIGRIPLLTAAEEVDLARRVEAGL-FAEEKLRLASDLDS-----QLAL------ 172
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 173 -DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 231
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 232 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEE 291
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 292 VAAHLDLLPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 343
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 344 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 403
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 404 LNKLRDHAFADQLRGYL 420
>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 (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 117/325 (36%), Positives = 180/325 (55%), Gaps = 59/325 (18%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + +K Y+K + ELLTH E + L+KKI G E + ++LAA+
Sbjct: 142 INDPVKMYLKEIGRVELLTHDEEIDLAKKILEG---------------DEDAKKELAAA- 185
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
N+RLV+SIA+RY G DL+Q G +GL++ +EK
Sbjct: 186 ------------------------NLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEK 221
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + ++E G P
Sbjct: 222 FDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLIQELGREP 281
Query: 368 SVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNP 425
S + IAE ++ M+ +KVR I K+ SL+ P SL GE S++ D +E+
Sbjct: 282 SAEEIAEKMDGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHLGD-FIEDEG 331
Query: 426 WHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 480
DD+A LKDE+N+ +++ L +RE +++RL +GLD T E++ K ++RER
Sbjct: 332 AMSPDDYAANELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVGKEFSVTRER 390
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
+RQ+ AL KLKH +R K+++ L
Sbjct: 391 IRQIEAKALRKLKHPSRSKRLKDFL 415
>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 = 165 bits (417), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 154/256 (60%), Gaps = 13/256 (5%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL I E A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 205 ELDQIQKEGVRAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 264
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG TPS++ I
Sbjct: 265 GYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGHTPSIEDI 324
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVD 430
A L M+ +VR + + SL+ + G+ + + D + +P +
Sbjct: 325 ATELEMTVPQVRELLVRVPRSVSLETKV--------GKDKDTELGDLLETDDLSPEEMMM 376
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
+L E+ KL + L RER++I + +GL D + DI + + LSRERVRQ+ AL
Sbjct: 377 RESLHRELEKL-LADLTSRERDVISMRFGLGDGHAYSLADIGRALDLSRERVRQIEAKAL 435
Query: 490 EKLKHAARKKKMEAML 505
+KL+ R+ ++ L
Sbjct: 436 QKLRQPKRRNRVRDYL 451
>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 = 7e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPIDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
++
Sbjct: 363 QL 364
>gi|427737532|ref|YP_007057076.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427372573|gb|AFY56529.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 330
Score = 165 bits (417), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 180/305 (59%), Gaps = 21/305 (6%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL+ E + ++++K + L K L E+ EPS+ A ++ ++ +LQ L +
Sbjct: 35 LLSREEEIFFAQRVKQLMELLQVKEDLTEKSSSEPSLSTWANAVEMTPTQLQETLDNGEI 94
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR+K++ +N+RLV++IA++Y + + DL+Q G +GL RG+EKFD KG+K STY YWW
Sbjct: 95 ARQKMIEANLRLVVAIAKKYQHRNLEFVDLIQEGTLGLQRGVEKFDPDKGYKFSTYAYWW 154
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQ ++RAL + SR++RLP H+ + L I+ A+ L ++ G P++ I+ ++++ ++
Sbjct: 155 IRQAITRALDQKSRSIRLPIHVCQTLKKIKKARRDLTQQLGRNPTISEISSHVSLKPAQI 214
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW----ALKDEVN 439
++ + SLD GE + + D + N +DD+ +LK+ ++
Sbjct: 215 QDYLHMSRQPVSLDLRV--------GEGQDTELQDLLEDTNS--SIDDYVNSQSLKECLD 264
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ +V L ++RE++ L++GL D LT +++KR+ +S RVRQ+ A+ +L R+
Sbjct: 265 EM-LVELTPQQREVVNLHFGLSDGRELTLTEVAKRMDISHTRVRQLQRQAIARL----RR 319
Query: 499 KKMEA 503
KKM+
Sbjct: 320 KKMKV 324
>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 = 165 bits (417), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E P+ ++ A +
Sbjct: 64 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAG 123
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 124 MPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 183
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 184 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPT 243
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 244 EEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 293
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 294 PEDQVSKSLLREDLEN-VLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 352
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 353 IEAKALRKLRHPNR 366
>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 = 7e-38, Method: Compositional matrix adjust.
Identities = 90/247 (36%), Positives = 154/247 (62%), Gaps = 14/247 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY W
Sbjct: 130 MAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ ++IAE ++M+ K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQDLGQDPTPEQIAERMDMTPDK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + V NP L+++++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 301
Query: 440 KLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 302 E-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRS 360
Query: 499 KKMEAML 505
K+++ +
Sbjct: 361 KQLKDFM 367
>gi|354565375|ref|ZP_08984550.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353549334|gb|EHC18776.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 327
Score = 165 bits (417), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 97/303 (32%), Positives = 179/303 (59%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L D K L ++L EPS+E+ AA ++ S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALVKKLRREPSLEEWAAHVKKSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 SEVKQTVQQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +PS
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ L + ++R + SLD + G +T + ++ ++ ++ +
Sbjct: 200 IAQELELEPAQIREYLNMARQPVSLDVKV-----GDNQDTELQEMLEDEGQSPEYYMTQE 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+ L+ ++N L + L ++RE++ L +GL D ++ + +R+ LSRERVRQ+ AL
Sbjct: 255 F-LRQDLNNL-LSELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALA 312
Query: 491 KLK 493
L+
Sbjct: 313 HLR 315
>gi|297736323|emb|CBI24961.3| unnamed protein product [Vitis vinifera]
Length = 319
Score = 165 bits (417), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 110/300 (36%), Positives = 161/300 (53%), Gaps = 8/300 (2%)
Query: 199 GVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSI 258
G +LT E +K L+ + R+ E EP+ Q A ++ I R L +
Sbjct: 16 GAARSAVLTPREEAEFCLCLKEEAGLEAARRRIAETREHEPTSNQWAEAVGIKRSSLDKM 75
Query: 259 LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 318
L +RE++ S RLV+SIA RY G + DL+Q G IGLLRG E+FD +G+K+S
Sbjct: 76 LCNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKLS 135
Query: 319 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLN 377
TYVYWWIRQ + RA+ SR +RLP + E + I A+ L + P+ D IAE+++
Sbjct: 136 TYVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFID 195
Query: 378 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDE 437
++ VR +E S+D +A S G I E P V +K E
Sbjct: 196 VNVSTVRLVSERSRTPISVD-QAVTS----QGCMTLQEIIPGPDETTPQKMVKRQLMKQE 250
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
V + + TL ERE I+RLY+G++ E L++E+I + + LSRERVRQ+ +AL KL+ +
Sbjct: 251 VER-ALNTLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQTS 309
>gi|427728873|ref|YP_007075110.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427364792|gb|AFY47513.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 309
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 179/304 (58%), Gaps = 11/304 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + ++++ +++++HK +L ++L EP++ +LA + S
Sbjct: 2 VRVYLQEIGQFPLLTSDQEITYGRQVQQMIAIEEHKQQLSQQLHREPTLAELADFVNKSE 61
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E+ IL + A++K++ +N+RLV+S+A++Y + + DLVQ G IGL RGIEKFD +
Sbjct: 62 TEVNQILQQGQRAKQKMITANLRLVVSVAKKYQHRNLEFLDLVQEGAIGLQRGIEKFDPN 121
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K+STY YWWI Q ++RA+ E SRT+RLP H++E+L I+ A+ L + +V
Sbjct: 122 RGYKLSTYAYWWISQAITRAIAEKSRTVRLPVHVNEKLNQIKKAQRELFQTLNRRATVTE 181
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS-YIADNRVENNPWHGVD 430
IA+ LN+ ++R SLD + G +T S + D + +P +
Sbjct: 182 IAQKLNLEPSQIREYLSVASGTISLDLKV-----GDNQDTELSELLPDEGI--SPNEQIT 234
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVAL 489
L+ +++ L + +L +RE++ L +G LD + + I +++ +SRERVRQ+ A+
Sbjct: 235 QELLRQDLSDL-LASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQIQQQAM 293
Query: 490 EKLK 493
L+
Sbjct: 294 TALR 297
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L ++L EP ++ A +
Sbjct: 67 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLYDKLDREPQDQEWAGEVD 126
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 127 MPLQSFRHRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 186
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 187 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 246
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 247 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 296
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ + ++ TL RER++++L YGLD + T E+I + ++RER+RQ
Sbjct: 297 PEDQVSKNLLREDL-ETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 355
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 356 IEAKALRKLRHPNR 369
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 151 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 210
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+MS+ KV
Sbjct: 211 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMSEDKV 270
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 271 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPESNVEAVMLREHIDS 322
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 323 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 381
Query: 500 KMEAML 505
++ L
Sbjct: 382 RIRDFL 387
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 180/318 (56%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT E V L+++++ GL + E+L P ++ AS
Sbjct: 40 FRQYLREIGRIPLLTAEEEVDLARRVEAGLFAE-------EKLANTPDLDSRLAS----- 87
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ KL+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 88 -DLDRLVVLGRIAKRKLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 146
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + +IR + L+E+G P+ +
Sbjct: 147 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVIRVQRRMLQERGYEPTAEE 206
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L++ A E +G+V L +E SL+ GE + D + + V+
Sbjct: 207 VAAQLDL-------APERVGEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVES 258
Query: 432 WA---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
A L+ + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 259 AAFLLLRRHLED-VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESK 317
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 318 TLGKLRDHAYADQLRGYL 335
>gi|427703469|ref|YP_007046691.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
gi|427346637|gb|AFY29350.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
Length = 356
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 106/322 (32%), Positives = 189/322 (58%), Gaps = 17/322 (5%)
Query: 181 RSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-CEP 239
RSM P + + ++ Y++ + LL+H + + L ++++ ++L++ + LK R G +P
Sbjct: 38 RSM--PPVDGDLVRSYLRDIGRVPLLSHEQEITLGRQVQELMALEELREELKMRAGGTDP 95
Query: 240 SMEQLAASLRISRPE-LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 298
S ++LAA+ + RPE L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G
Sbjct: 96 SQQELAAAAGL-RPEVLRKRLHAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEG 154
Query: 299 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 358
IGL+RG+EKFD ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ +
Sbjct: 155 TIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQR 214
Query: 359 RL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA 417
L +E G TP++ +A + + +++V++ + SL+ + GE
Sbjct: 215 ELSQELGRTPTLSELAVAVELPEEEVKDLLCRARQPVSLETKVG------DGEDTELLDL 268
Query: 418 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGL 476
+ P VD LK ++ L + L E + ++++ YG+D +E ++ I + +G+
Sbjct: 269 LAGDDLLPADLVDGECLKGDLRAL-LEQLPELQGRVLKMRYGIDGEEPMSLTGIGRILGI 327
Query: 477 SRERVRQV---GLVALEKLKHA 495
SR+RVR + GL L +L A
Sbjct: 328 SRDRVRNLERDGLAGLRRLSDA 349
>gi|406926592|gb|EKD62776.1| hypothetical protein ACD_52C00059G0002 [uncultured bacterium]
Length = 359
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 157/246 (63%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D +GFK STY WW
Sbjct: 122 AKDKLIESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRRGFKFSTYATWW 181
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L R ++ ++E G P+ + IAE + +++++V
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLYRTSRKLMQELGREPTPEEIAEEMELTEERV 241
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++F + +E SL G+ S + D + + VD + LKD +++
Sbjct: 242 R-------EIFKISQEV-TSLETPVGDDGESVLGDFIPDESHLSPVDQASKQLLKDHLDE 293
Query: 441 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE ++++L +GLD + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLSTLTEREAKVLKLRFGLDGSKQMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 500 KMEAML 505
K++ L
Sbjct: 353 KLQDYL 358
>gi|254424042|ref|ZP_05037760.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
gi|196191531|gb|EDX86495.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
Length = 319
Score = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 109/320 (34%), Positives = 177/320 (55%), Gaps = 17/320 (5%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
N + Y+KG+ LLTH + + L K ++ + L+ + L E + EP++ + A + +
Sbjct: 9 NLVSRYLKGIGRFPLLTHEQEITLGKTVQQLMKLEAIRDDLTETMDREPTLAEWAEATNL 68
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S L+ + A++K++ SN+RLV+SIA++Y DM DL+Q G +GL RG+EKFD
Sbjct: 69 SPEALKKTVEIGQQAKDKMMRSNLRLVVSIAKKYRGSKLDMMDLIQEGSLGLCRGVEKFD 128
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSV 369
KG++ STY YWWIRQ ++RA+ + RT+RLP H++E+L IR A+ + E G +V
Sbjct: 129 PLKGYRFSTYAYWWIRQAITRAIADTGRTIRLPIHINEKLSKIRKAQREVSLELGRPATV 188
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREA-FP-SLNGLPGETHHSYIAD--NRVENNP 425
+AE +++ +KVR L R++ P SLN G ++ + +P
Sbjct: 189 SEVAEKVSLPAEKVRE----------LQRQSRLPLSLNMRIGSEQNTELGALLESDSQSP 238
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQV 484
LK ++ +L + L ER++++I + +GLD + T I + +SRERVRQ+
Sbjct: 239 EEYATQNLLKRDIGQL-LARLTERQKDVISMRFGLDDGKKKTLAQIGHDLDISRERVRQI 297
Query: 485 GLVALEKLKHAARKKKMEAM 504
AL L+H R K M
Sbjct: 298 ERKALRTLRHTGRGLKEYTM 317
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KM 501
++
Sbjct: 364 QL 365
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 178/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L + L EP + A +++
Sbjct: 76 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREHLCDHLHREPYDAEWADAVK 135
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+S + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 136 MSVGQFRHRLHCGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 195
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 196 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 255
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 256 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 305
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 306 PEDQVSKNLLREDLES-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 364
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 365 IEAKALRKLRHPNR 378
>gi|1588486|prf||2208419B RNA polymerase sigma factor
Length = 391
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L E P+ ++ A +
Sbjct: 80 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAG 139
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 140 MPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPT 259
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 260 EEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 309
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 310 PEDQVSKSLLREDLEN-VLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 368
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 369 IEAKALRKLRHPNR 382
>gi|257061333|ref|YP_003139221.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8802]
gi|256591499|gb|ACV02386.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8802]
Length = 328
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 103/319 (32%), Positives = 182/319 (57%), Gaps = 13/319 (4%)
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
SK + M S +++ + Y+ + LLTH + + K+++ +SL + K +L + G
Sbjct: 8 SKTKQPMYSADMV----RTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQG 63
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EPS ++ A ++ + PELQ + + + A+ K++ +N+RLV++IA++Y + DL+Q
Sbjct: 64 TEPSDKEWAKAVNLKEPELQKTIEQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 356
G +GL RG+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 357 KLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
+ L +K G + + IA L + ++R + SLD G +T S
Sbjct: 184 QRELSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRV-----GDNQDTELSE 238
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRI 474
+ ++ E +P + L+ ++ L + L ++R ++ L +GL D + L+ I K++
Sbjct: 239 LLEDH-EASPDQYITQELLRQDLKNL-MEELTPQQRSVLILRFGLEDGKELSLAKIGKKL 296
Query: 475 GLSRERVRQVGLVALEKLK 493
+SRERVRQ+ AL +L+
Sbjct: 297 NISRERVRQLEHQALAQLR 315
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 108/323 (33%), Positives = 177/323 (54%), Gaps = 30/323 (9%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + + Y+K + LLT E V L+K+++ G + R K G E E
Sbjct: 135 IDDSISLYLKEIGRVPLLTAEEEVELAKRMERG-----REARKKLSEGVEDWEE------ 183
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
R L + + A+E L+ +N RLV+S+A++Y G DL+Q G IGL+R ++K
Sbjct: 184 ---RERLLWYVRDGQAAQEHLIKANSRLVVSVAKKYVGRGVPFLDLIQEGNIGLIRAVKK 240
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD S+G+K STY WWIRQ V+RA+ + RT+R+P H++E++ L R ++ ++E G P
Sbjct: 241 FDYSRGYKFSTYATWWIRQAVTRAIADQGRTIRVPVHMYEQINRLTRTSRQLVQELGRDP 300
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLP-GETHHSYIAD---NRVEN 423
+ + IAE L +S +KV + + SL+ +P GE SY+ D + +
Sbjct: 301 TTEEIAEELGVSPRKVEHIMRVSQRPLSLE---------MPVGEEEDSYLGDFIEDEDAD 351
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
P L++ +++ I +L RE I++L +GL D C T E++ K+ G++RER+R
Sbjct: 352 APGEAAGQQLLREVIDE-IFQSLTPREVRILQLRFGLVDGYCYTLEEVGKKFGVTRERIR 410
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ AL +L+H +R +K+ L
Sbjct: 411 QIEAQALSRLRHPSRSRKLRDYL 433
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KM 501
++
Sbjct: 364 QL 365
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ RL ++L +P + A +++
Sbjct: 78 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVGDRLVQQLERQPQESEWAEAVQ 137
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 138 LPLQKFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 197
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 198 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 257
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 258 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 307
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 308 PEDQVSKSLLREDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 366
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 367 IEAKALRKLRHPNR 380
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 115/339 (33%), Positives = 189/339 (55%), Gaps = 28/339 (8%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSK----KIKTGLSLDDHKLRLKERLGCEP 239
+ P + ++ LK KGV E+ T E++ L K + G +D + L E +G E
Sbjct: 57 VIPTVDEDALKKLEKGVEKED--TEDELLALEDEDFSKEEDGEDIDLDAVDLLEGIGTED 114
Query: 240 S----MEQLAASLRISRPELQSILME----CSLAREKLVMSNVRLVMSIAQRYDNMGADM 291
++++ ++ E S+ M+ A+++L+ +N+RLV+SIA+RY G
Sbjct: 115 PVRMYLKEIGTVPLLTAEEEYSLAMKKQEGDEYAKQRLIEANLRLVVSIAKRYTGRGMSF 174
Query: 292 ADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG 351
DLVQ G +GL++G+EKFD KGFK+STY WWIRQ V+RAL + +RT+R+P H+ E +
Sbjct: 175 LDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETIN 234
Query: 352 LIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE 410
+ + +L E G PSV +AE+L+M+++KV+ ++ + RE SL GE
Sbjct: 235 KMSKMQRKLTLELGYEPSVKELAEHLDMTEEKVQ-------EIMQIAREP-ASLETPIGE 286
Query: 411 THHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLT 466
S + D + N P V+ L++ ++ L+ L ERER++I L +GL D T
Sbjct: 287 EDDSNLGDFVADANVLSPEGNVESVMLREHIDSLLD-DLKERERQVIVLRFGLEDGHPRT 345
Query: 467 WEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E++ + ++RER+RQ+ AL KL++ R K++ L
Sbjct: 346 LEEVGREFNVTRERIRQIEAKALRKLRNPVRSKRIRDFL 384
>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 = 8e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KM 501
++
Sbjct: 364 QL 365
>gi|434387533|ref|YP_007098144.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
gi|428018523|gb|AFY94617.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
Length = 318
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 101/308 (32%), Positives = 178/308 (57%), Gaps = 15/308 (4%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y++ + LLTH + + K+++ +SL K L E G EPS+ + A + I
Sbjct: 9 DTVRTYLREIGRVPLLTHEQEILYGKQVQQLVSLVAVKNTLMEEFGREPSLTEWATAANI 68
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+LQ + A+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 69 DELQLQKTISAGENAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGTIGMQRGVEKFD 128
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
SKG++ STY YWWIRQ ++RA+ E +R +RLP H+ E+L I+ A+ L ++ G ++
Sbjct: 129 PSKGYRFSTYAYWWIRQAITRAIAEKARAIRLPIHITEKLNKIKKAQRSLAQQFGRAATI 188
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN---NPW 426
+ +A L +S K+VR E + SLD G+ + + D +E+ +P
Sbjct: 189 NELAAELELSSKQVREYLERARQPLSLDLRV--------GDNQDTELGD-LLEDPGISPE 239
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
V + +L+ ++ ++ + L ++++++ L +GL D + LT I + +SRERVRQ+
Sbjct: 240 EYVTNSSLQVDLERM-MSELTPQQQQVLTLRFGLKDTQPLTLAKIGDLLNISRERVRQIE 298
Query: 486 LVALEKLK 493
A+ KL+
Sbjct: 299 REAIAKLR 306
>gi|428226189|ref|YP_007110286.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geitlerinema sp.
PCC 7407]
gi|427986090|gb|AFY67234.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geitlerinema sp.
PCC 7407]
Length = 318
Score = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 108/315 (34%), Positives = 179/315 (56%), Gaps = 11/315 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + K+++ L + L ER EP+ + A + +S
Sbjct: 11 VRTYLREIGRVPLLTHEQEILYGKQVQRLSGLQSIREGLVERWDREPTSTEWAEAAGVSE 70
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ ++ E LA+ ++V +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD +
Sbjct: 71 ADLEQVIQEGELAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPT 130
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG++ STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ A+ +L +K G S
Sbjct: 131 KGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAASAAE 190
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE L+++ K+VR+ E + SLD + + GE +P
Sbjct: 191 LAEELDLTTKQVRDYLEKARQPLSLDLRVGDNQDTELGELLED------TGPSPEEFTAQ 244
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
AL+ ++ +L + L ++RE++ L +GL D + +T I R+ +SRERVRQ+ AL
Sbjct: 245 VALRMDLEEL-MADLTPQQREVLSLRFGLRDGQAMTLAKIGDRLNISRERVRQIEREALT 303
Query: 491 KLKHAARKKKMEAML 505
KL+ RK M L
Sbjct: 304 KLRK--RKADMREYL 316
>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 = 164 bits (416), Expect = 8e-38, Method: Compositional matrix adjust.
Identities = 107/319 (33%), Positives = 181/319 (56%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM--EQLAASLRI 250
+ Y++ + LLT AE V L+++++ GL + E+L P + +LAA
Sbjct: 139 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLAATPDLNSSRLAA---- 187
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 188 ---DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFD 244
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 245 YTRGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTP 304
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ +A L++ ++V +V L +E SL+ GE + D + + V
Sbjct: 305 EEVAAQLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPV 356
Query: 430 DDWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 357 ESAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIES 416
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 417 KTLNKLRDHAFADQLRGYL 435
>gi|397614537|gb|EJK62861.1| hypothetical protein THAOC_16512 [Thalassiosira oceanica]
Length = 466
Score = 164 bits (416), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 106/312 (33%), Positives = 171/312 (54%), Gaps = 19/312 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+K + + ELL E + L+++I+ + + + L+ L P+ ++ AAS+ PE+
Sbjct: 153 YMKTMGNHELLQKNEEIILAREIQILIGWEGKRDELEAELVRPPTYQEWAASID---PEM 209
Query: 256 QSILMECSL-----AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
I ++ + A+ L SN+RLV+SIA+RY N G +M DL Q G +GL R EKFD
Sbjct: 210 TVIQLKRQIRRSLRAKAALTESNLRLVISIAKRYQNRGLNMQDLCQEGTLGLTRACEKFD 269
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
KGF+ STY WWI+QG+ RA+ + +RT+RLP H+H++L L+R + L E G P+
Sbjct: 270 PEKGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLNLVRKTENDLASELGRDPTK 329
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV---ENNPW 426
+ IA + + K+ + G R + G + S+ + + E P
Sbjct: 330 EEIAAKVGIKPDKIDFLKRSKGI-----RGGYRWFQGGAAGSERSFTIQDTLGDPEQQPV 384
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVG 485
L+D++++L I TL RE+ +IRL +GLD T E+I ++ ++RER+RQ+
Sbjct: 385 DMAQYRMLQDDLSRL-IRTLNAREQAVIRLRFGLDDGTPKTLEEIGRKFSVTRERIRQIE 443
Query: 486 LVALEKLKHAAR 497
AL KL+ R
Sbjct: 444 ARALHKLRQPYR 455
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
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 (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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 (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 745 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 804
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 805 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 864
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 865 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 916
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 917 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 975
Query: 500 KMEAML 505
++ +
Sbjct: 976 QLRDFI 981
>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 (415), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
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 = 9e-38, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
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: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q +L A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGF
Sbjct: 147 QRVLKGDEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGF 206
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAE 374
K STY WWIRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G P+ + +++
Sbjct: 207 KFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEPTAEELSK 266
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L + KV+N E SL+ + G+ ++ D++ NP+ L
Sbjct: 267 KLEIPVDKVKNILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-LNPYDATTRVLL 321
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 493
K+++++ I+ TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+
Sbjct: 322 KEQLDE-ILKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVTRERIRQIEVKALRKLR 380
Query: 494 HAARKKKME 502
H +R+KK+E
Sbjct: 381 HPSRRKKLE 389
>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 (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 155/254 (61%), Gaps = 15/254 (5%)
Query: 254 ELQSILMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + E L A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD S
Sbjct: 119 ELAVAVAEGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYS 178
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQ 238
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 428
IAE + M+ KVR ++ + +E SL GE S++ D + V NP
Sbjct: 239 IAERMEMTPDKVR-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDY 290
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLV 487
L++++++ ++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+
Sbjct: 291 TTRVVLREQLDE-VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAK 349
Query: 488 ALEKLKHAARKKKM 501
AL KL+H +R K++
Sbjct: 350 ALRKLRHPSRSKQL 363
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 110/323 (34%), Positives = 179/323 (55%), Gaps = 33/323 (10%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLT AE V L+K+I+ GL + E+LAA+ +I
Sbjct: 102 DPVRMYLKTIGRVRLLTAAEEVDLAKRIEAGLF----------------ASEKLAATRKI 145
Query: 251 S---RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
S R +LQ++ + +A+ KLV +N+RLV+SIA+RY G + DL+Q G +GL+R +E
Sbjct: 146 SPQLRQDLQAVEQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVE 205
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KG+K STY WWIRQ V+RAL + RT+R+P H+ E + + R + L+E G
Sbjct: 206 KFDYTKGYKFSTYATWWIRQAVTRALADQGRTIRIPVHMAETVNKVTRIQRQLLQELGRE 265
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
PS + I ++++ KV E I K+ + +L G S + D +++
Sbjct: 266 PSPEEIGTQIDLTAHKV----EEILKIA----QTPVALETPIGAEQDSQLGDFIEDDDAI 317
Query: 425 -PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
P+ L+ + ++ TL RE+++I+L +GL D + T E I + G+ +ER+R
Sbjct: 318 APFEAASSVLLQKHIES-VLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREFGIPQERIR 376
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ L KL H AR +++ L
Sbjct: 377 QIESRTLAKLSHPARSQRLRDYL 399
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ L +RL EP +++ A +
Sbjct: 60 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIYDDLFDRLEREPQLQEWALEVD 119
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 120 MPLNRFRHRLHAGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 179
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 180 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 239
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 240 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 289
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ + ++ TL RER++++L YGLD + T E+I + ++RER+RQ
Sbjct: 290 PEDQVSKSLLREDL-ETVLDTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 348
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 349 IEAKALRKLRHPNR 362
>gi|126697159|ref|YP_001092045.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9301]
gi|126544202|gb|ABO18444.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9301]
Length = 344
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 182/309 (58%), Gaps = 16/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L + E G +PS+++L+ L +S
Sbjct: 37 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEISELTGDKPSIDELSTKLNLST 96
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 97 SVIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP+V
Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 217 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 268
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L + L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 269 EMDCMRGDLHSL-LHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 327
Query: 486 LVALEKLKH 494
L L +L H
Sbjct: 328 LRGLRRLSH 336
>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 (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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 = 1e-37, Method: Compositional matrix adjust.
Identities = 103/299 (34%), Positives = 177/299 (59%), Gaps = 29/299 (9%)
Query: 215 SKKIKTGLSLDDHKLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMS 272
S K+KT D ++ LKE R+ + E++A + RI + +A+++L +
Sbjct: 122 SSKVKTN---DPVRMYLKEIGRVDLLTADEEVALAKRIEAGD--------PVAKQELAEA 170
Query: 273 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 332
N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++R+
Sbjct: 171 NLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWWIRQAITRS 230
Query: 333 LVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIG 391
+ + +RT+R+P H+ E + L+R + L+E G P+ + I +++ +KVRN
Sbjct: 231 IADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPEEIGAEMDLPTEKVRN------ 284
Query: 392 KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLG 447
+ + +E SL GE S++ D +E+N D++ LK+++N+ ++ TL
Sbjct: 285 -IMKISQEPV-SLETPIGEEDDSHLGDF-IEDNDAMQPDEYTNQELLKEQLNE-VLDTLT 340
Query: 448 EREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RE ++RL +GL D + T E + ++ G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 341 DREENVLRLRFGLEDGQTKTLEQVGQQFGVTRERIRQIEAKALRKLRHPSRLKQLKDFL 399
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>gi|428770800|ref|YP_007162590.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428685079|gb|AFZ54546.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 332
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 102/310 (32%), Positives = 185/310 (59%), Gaps = 23/310 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + K+++ +SL + K L++ L E ++E+ A +
Sbjct: 24 VRTYLQEIGKVPLLSHEQEIVFGKQVQQMMSLYEVKENLEKNLEREVTLEEWAQKADKTP 83
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ I+ + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 84 NEVKKIIHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPT 143
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KGFK STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G +PS +
Sbjct: 144 KGFKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSPSPNE 203
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA----DNRVENNPWH 427
IAE L + ++R + FS+ R+ SL+ G+ + ++ D V +P +
Sbjct: 204 IAEALQLEPAQIR-------EYFSIARQPI-SLDVKVGDNQDTELSELLEDEGV--SPDN 253
Query: 428 GVDDWALKDEVNKLIIVTLGE---REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
+ ++ ++ KL LGE ++++++RL +GL D + L+ I +R+ +SRERVRQ
Sbjct: 254 YITQELMRQDLQKL----LGELTPQQQQVVRLRFGLEDGKELSLAKIGQRMNISRERVRQ 309
Query: 484 VGLVALEKLK 493
+ AL L+
Sbjct: 310 LEQQALAHLR 319
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 109/319 (34%), Positives = 179/319 (56%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ--LAASLRI 250
+ Y++ + LLT AE V L++ ++ GL + E+L P + LAA
Sbjct: 112 FRQYLREIGRIPLLTAAEEVELARCVEAGLFAE-------EKLAGTPDLNDSPLAA---- 160
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 161 ---DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFD 217
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E G P+
Sbjct: 218 YARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEHGQEPTA 277
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
D +A L++ ++ IG+V L +E SL+ GE + D + + V
Sbjct: 278 DEVAAQLDLPPER-------IGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPV 329
Query: 430 DDWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 330 ESAAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIES 389
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 390 KTLNKLRDHAFADQLRGYL 408
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMGMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
+++ +
Sbjct: 362 QLKDFI 367
>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 (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KMEAML 505
++ +
Sbjct: 362 QLRDFM 367
>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 (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 98/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 144 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 203
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+MS+ KV
Sbjct: 204 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVSELAEALDMSEDKV 263
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 315
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 316 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 374
Query: 500 KMEAML 505
++ L
Sbjct: 375 RIRDFL 380
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L++ + ++ G P ++ A +
Sbjct: 158 EDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAGQFEQDNGHYPDNKEWAVLVD 217
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + LM A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 218 MPPVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 277
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 278 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPT 337
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IAE + M+ +K+R F P SL G+ S + D +E N
Sbjct: 338 EEEIAESMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADIEN 387
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 388 PEQDVAKNLLREDLEG-VLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 446
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 447 IEAKALRKLRHPNR 460
>gi|91203809|emb|CAJ71462.1| strongly similar to transcription initiation factor sigma RpoD
[Candidatus Kuenenia stuttgartiensis]
Length = 551
Score = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 95/253 (37%), Positives = 151/253 (59%), Gaps = 8/253 (3%)
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
++SI E A+ KL +N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +G
Sbjct: 298 IESIYKEHESAKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRG 357
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIA 373
+K STY WWIRQ ++R++ + +RT+R+P H+ E + IRN +K L++KG P+++ IA
Sbjct: 358 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETMSKIRNISKKLLQDKGREPTIEEIA 417
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ +S + R + SLDR S + G+ +I D + E +P
Sbjct: 418 REVKISVPEARRVLKISRHQISLDRPVGESEDSSFGD----FIEDEKAE-SPVAAATQEM 472
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
LKD++ ++ TL REREII+L YG+ D T E++ K ++RERVRQ+ A+ KL
Sbjct: 473 LKDKIES-VLETLTYREREIIKLRYGIGDGYTYTLEEVGKIFKVTRERVRQIEAKAVRKL 531
Query: 493 KHAARKKKMEAML 505
+H R +K+E L
Sbjct: 532 QHPIRSRKLEGFL 544
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 116/341 (34%), Positives = 189/341 (55%), Gaps = 62/341 (18%)
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 ERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 292
A+++L +N+RLV+SIA+RY G
Sbjct: 171 --------------------------------AKKRLAAANLRLVVSIAKRYVGRGMLFL 198
Query: 293 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG- 351
DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E +
Sbjct: 199 DLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 258
Query: 352 LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPG 409
L R + ++E G P+ + IA+ + M+ +KVR+ I K+ SL+ P SL G
Sbjct: 259 LTRIQRQLIQELGREPTAEEIADKMEGMTPEKVRD----IQKI-SLE----PVSLETPIG 309
Query: 410 ETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-EC 464
E S++ D +E+ DD+A LKDE+N+ +++ L +RE +++RL +G+D
Sbjct: 310 EEDDSHLGD-FLEDEGAMSPDDYASNELLKDELNE-VLLELTDREEKVLRLRFGIDDGRT 367
Query: 465 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ K ++RER+RQ+ AL KLKH +R K+++ L
Sbjct: 368 RTLEEVGKEFNVTRERIRQIEAKALRKLKHPSRSKRLKDFL 408
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 107/319 (33%), Positives = 181/319 (56%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM--EQLAASLRI 250
+ Y++ + LLT AE V L+++++ GL + E+L P + +LAA
Sbjct: 88 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLAATPDLNSSRLAA---- 136
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 137 ---DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFD 193
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 194 YTRGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTP 253
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ +A L++ ++V +V L +E SL+ GE + D + + V
Sbjct: 254 EEVAAQLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPV 305
Query: 430 DDWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+ A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 306 ESAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIES 365
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 366 KTLNKLRDHAFADQLRGYL 384
>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 = 164 bits (415), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 104/315 (33%), Positives = 183/315 (58%), Gaps = 20/315 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y++ + LLTH E + L K+++ ++L + K +L E LG + + + + + I
Sbjct: 18 DTVRTYLQEIGRVPLLTHEEEIVLGKQVQCLMALQETKDKLDEELGHDANRVEWSQAAGI 77
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S EL L A+ K++ +N+RLV+++A++Y + DL+Q G +GL RG+EKFD
Sbjct: 78 SETELVHQLRHGERAKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLERGVEKFD 137
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
KG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L I+ + L +K G +PSV
Sbjct: 138 PMKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKREQRVLAQKLGRSPSV 197
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNP 425
I + L+++ ++VR + ++ R+ SL+ G+ + + D+ V +P
Sbjct: 198 GEIGQELDLTPEQVR-------EYLTMSRQPI-SLDVRIGDNQDTELQELLEDDTV--SP 247
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+L+ ++ + + L +++E+I L +GL D L+ + +R+G+SRERVRQ+
Sbjct: 248 EDYTVQQSLRQDIRNM-LTELTPQQKEVINLRFGLIDGTQLSLAKVGQRMGISRERVRQL 306
Query: 485 GLVALEKLKHAARKK 499
A LKH R+K
Sbjct: 307 EQQA---LKHLRRRK 318
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR+KLV +N+RLV+SIA++Y N G + DL+Q G +GL+R ++KFD SKGF+ STY WW
Sbjct: 113 ARKKLVEANLRLVVSIARKYTNRGLHLLDLIQEGNLGLMRAVDKFDVSKGFRFSTYATWW 172
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ +SRA+ E SRT+R+P H+ E + + N K R L + P + +AE + +S +KV
Sbjct: 173 IRQAISRAISEQSRTIRIPVHMVEVMNKLVNEKKRFLIQHNREPLAEELAEIMGISIEKV 232
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ S++ +NG +I+D R + P+ + LK++V + +
Sbjct: 233 NEVIKLTQDTISIE----TPINGDEDSYLRDFISDERA-STPYEKTQENILKEKVEE-AL 286
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L RERE+I+L +G+ D + T E++ K G++RER+RQ+ + AL KL+H KK+
Sbjct: 287 SDLTLREREVIKLRFGIPDGKTHTLEEVGKYFGITRERIRQIEVKALRKLRHIGVIKKLN 346
Query: 503 AML 505
L
Sbjct: 347 DFL 349
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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 = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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 (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>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 = 106/317 (33%), Positives = 182/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+LG P ++ A
Sbjct: 146 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLGGTPDLDSELAL----- 193
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 194 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 252
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 253 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTHEE 312
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A++L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 313 VADHLDLLPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 364
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 365 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 424
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 425 LNKLRDHAFADQLRGYL 441
>gi|434396918|ref|YP_007130922.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
gi|428268015|gb|AFZ33956.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
Length = 368
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 105/324 (32%), Positives = 185/324 (57%), Gaps = 16/324 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + + + K + LL E V L+ +K + ++ + +LKE+L +P+ E+ +L
Sbjct: 53 IDDNIGAFFKEMARYPLLKPEEEVELANCVKVMVQAEEIRQQLKEQLNRQPTKEEWTKAL 112
Query: 249 RI-SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
++ S +L++ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G IGL R E
Sbjct: 113 QLESIRQLENRLYRGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATE 172
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 366
KFD +KG+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L+++
Sbjct: 173 KFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRNLKQQLQRN 232
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ +A LN+S + + ++ L R++ SLN G+ + + D +E++
Sbjct: 233 PNEQELANELNVSLSQ-------LHQLLELRRQSL-SLNHRVGKAEDTELVD-LLEDSEL 283
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P + + ++ E+ ++ L ERE+++I L YGL + T E++ LSRERV
Sbjct: 284 QLPEERMSEAMMRQEIFTVLSDVLTEREKDVISLRYGLATNQPYTLEEVGGMFNLSRERV 343
Query: 482 RQVGLVALEKLKHAARKKKMEAML 505
RQ+ A+ KL+ ++++ L
Sbjct: 344 RQIQSKAMRKLRRPQVARRLKGWL 367
>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 (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
++
Sbjct: 362 QL 363
>gi|428225416|ref|YP_007109513.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geitlerinema sp.
PCC 7407]
gi|427985317|gb|AFY66461.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geitlerinema sp.
PCC 7407]
Length = 327
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 100/312 (32%), Positives = 181/312 (58%), Gaps = 13/312 (4%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P L + ++ Y+ + LLTH + + K+++ ++L + + E LG EPS ++ A
Sbjct: 13 PTLHTDMVRTYLHEIGRVPLLTHEQEIIYGKQVQQMMALLQKQEAIAETLGREPSQQEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+++S +L L + A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG
Sbjct: 73 EGVQLSEADLAKALKQGQRAKQKMIEANLRLVVSIAKKYQKRNLEFLDLIQEGTLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD S+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G
Sbjct: 133 VEKFDPSRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKFG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN- 423
+ + IAE L + TE I + ++ R+ SL+ G+ + + + +
Sbjct: 193 RSATPAEIAEALELE-------TEQIREYLTISRQPI-SLDVRVGDNQDTELQELLEDEG 244
Query: 424 -NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
+P +L+ +++ L + L +++R+++ L +GL D L+ + +R+ LSRERV
Sbjct: 245 ASPEQYTAQESLRHDLDGL-MSELTQQQRDVLNLRFGLVDGHGLSLAKVGERLNLSRERV 303
Query: 482 RQVGLVALEKLK 493
RQ+ AL+ L+
Sbjct: 304 RQLERQALDHLR 315
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 144 FAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 203
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 382
WIRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ K
Sbjct: 204 WIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDK 263
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
V ++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 VM-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHID 315
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 316 AL-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRS 374
Query: 499 KKMEAML 505
K++ L
Sbjct: 375 KRIRDFL 381
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 144 FAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 203
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 382
WIRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ K
Sbjct: 204 WIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDK 263
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
V ++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 264 VM-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHID 315
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 316 AL-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRS 374
Query: 499 KKMEAML 505
K++ L
Sbjct: 375 KRIRDFL 381
>gi|153304|gb|AAA26762.1| principal sigma-like factor [Streptomyces aureofaciens]
gi|450077|prf||1920369A RNA polymerase:SUBUNIT=sigma
Length = 393
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 183/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 97 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 144
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 145 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 202
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 203 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAE 262
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L ++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 263 EVAVHLELTPERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 314
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L+ E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 315 SAAFFLRCEHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 374
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 375 TLNKLRDHAFADQLRGYL 392
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 148 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 207
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE+L+M+++KV
Sbjct: 208 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVKELAEHLDMTEEKV 267
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
+ ++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 268 Q-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLSPEGNVESVMLREHIDS 319
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L+ L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 320 LLD-DLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 378
Query: 500 KMEAML 505
++ L
Sbjct: 379 RIRDFL 384
>gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 344
Score = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 111/326 (34%), Positives = 178/326 (54%), Gaps = 12/326 (3%)
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 --CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 294
E + Q A++ ++ L L + A+ +++ +N+RLV+SIA++Y N DL
Sbjct: 61 PGAEVTDYQWASAAGLNVQALHQRLRDGKSAKNEMIQANLRLVVSIAKKYANSNMSFQDL 120
Query: 295 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIR 354
+Q G +GL+RG EKFD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + I
Sbjct: 121 IQEGCVGLIRGAEKFDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRIS 180
Query: 355 NAKLRLE-EKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL-PGETH 412
+ + G P+ + IA ++MS +K+ +A SL + ++ G G T
Sbjct: 181 KMEQKFALHNGRNPTTEEIAAEMDMSAEKITQIKKAAQAPVSLAQ----TMGGDNKGRTV 236
Query: 413 HSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDIS 471
+ D E P LK+++ ++ TL RER+++RL YGLD T E+I
Sbjct: 237 EDTLVDVTAE-GPEKVSGKSLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEEIG 294
Query: 472 KRIGLSRERVRQVGLVALEKLKHAAR 497
++RER+RQ+ AL KLK +R
Sbjct: 295 TVFSVTRERIRQIEAKALRKLKQPSR 320
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 100/296 (33%), Positives = 172/296 (58%), Gaps = 31/296 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPEL----------------------QSILMECSLARE 267
+L RL PS+E+ A + +IS EL + I+ + A+E
Sbjct: 139 QLTARLAHRPSLERWAKTAQISVSELKNALKAGKQHWAHLAGLEVGELEEIIALGTRAKE 198
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 199 QMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 258
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ IA+ L ++ + VR
Sbjct: 259 GMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQMRGRTATVEEIAQELALTPEAVREV 318
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + G +T + + ++ H V + +L+ ++ +L + L
Sbjct: 319 LMTVPRSVSLEIKV-----GKEKDTELLDLLETEAVSSENHLVYE-SLQRDIREL-LADL 371
Query: 447 GEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
RER++I L YG LD + + DI + + LSRERVRQ+ L AL+KL+ + R ++
Sbjct: 372 TTRERQVIELRYGFLDGKSHSLADIGRTLALSRERVRQIELKALQKLRQSGRHHQI 427
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 93/243 (38%), Positives = 149/243 (61%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A KLV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 169 AGRKLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 228
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
++Q ++R+L + SRT+RLP H+ E + IR A+ L K G PS++ +AE +NMS K+V
Sbjct: 229 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVKLGREPSMEEVAEEVNMSGKRV 288
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 289 AELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKAESFLLREEIDSM-L 342
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L RERE+I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ KK+
Sbjct: 343 QGLNPREREVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSKKIR 402
Query: 503 AML 505
L
Sbjct: 403 DFL 405
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 176/314 (56%), Gaps = 35/314 (11%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILM----------------- 260
+ T + L + + RL +LG PS+E+ A + + P+L+ L
Sbjct: 123 LATYVHLLNTRARLTAQLGHRPSLERWAKASGVDMPDLKPTLAQGKRLWAEIAGMSVEEI 182
Query: 261 -----ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
E + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG+
Sbjct: 183 VEIQNEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 242
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ + +G T + IA+
Sbjct: 243 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQTQGRTAKAEDIAK 302
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDW 432
L+M+ ++R + + SLD + G+ + + D + +P +
Sbjct: 303 ELDMTVAQIREVLLKVPRSVSLDTKV--------GKDRDTELGDLLETEDISPEDRLMRE 354
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEK 491
+LK E+++L + L RE+E+I L +GLD + +I + + LSRERVRQ+ AL+K
Sbjct: 355 SLKRELHQL-LTDLTTREQEVITLRFGLDDGVPYSLAEIGRTLELSRERVRQIESKALQK 413
Query: 492 LKHAARKKKMEAML 505
L+ R+ ++ L
Sbjct: 414 LRQPKRRNRVRDYL 427
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 108/321 (33%), Positives = 174/321 (54%), Gaps = 27/321 (8%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME----QLA 245
++ ++ Y++ + LL E + L++KI L L+ + L +G + E A
Sbjct: 97 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELEQQREELANEMGLDDPEEVSDSDWA 156
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+ + P + L E A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 157 VKVDMPLPRFRRRLYEGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 216
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKG 364
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 217 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMG 276
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD----REAFPSLNGL---PGETHHSYIA 417
P+ + IA + M+ +K+R ++ SL+ +E L GET +A
Sbjct: 277 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPDDQVA 336
Query: 418 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGL 476
N L++++ ++ TL RER++++L YGLD + T E+I + +
Sbjct: 337 KN-------------LLREDLEN-VLGTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 382
Query: 477 SRERVRQVGLVALEKLKHAAR 497
+RER+RQ+ AL KL+H R
Sbjct: 383 TRERIRQIEAKALRKLRHPNR 403
>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 = 93/253 (36%), Positives = 153/253 (60%), Gaps = 8/253 (3%)
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
+++I E A+ KL +N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +G
Sbjct: 298 IENIYREHEAAKRKLSGANLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRG 357
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIA 373
+K STY WWIRQ ++R++ + +RT+R+P H+ E + IRN +K L+EKG P+++ I+
Sbjct: 358 YKFSTYATWWIRQAITRSIADQARTIRIPVHMIETMSKIRNVSKKLLQEKGREPTIEEIS 417
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ + ++ ++ R + SLDR S + G+ +I D + E +P
Sbjct: 418 KEVKITVEEARRVLKISRHQISLDRPVGESEDSSFGD----FIEDEKAE-SPVSAATQEM 472
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
LKD++ ++ TL REREII+L YG+ D T E++ K ++RERVRQ+ A+ KL
Sbjct: 473 LKDKIES-VLETLTYREREIIKLRYGIGDGYTYTLEEVGKIFKVTRERVRQIEAKAVRKL 531
Query: 493 KHAARKKKMEAML 505
+H R +K+E L
Sbjct: 532 QHPIRSRKLEGFL 544
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + ERL P ++ A
Sbjct: 67 FRQYLREIGRITLLTAAEEVELARRVEAGLFAE-------ERLAGTPDLDSRLAG----- 114
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 115 -DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 173
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ +
Sbjct: 174 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEE 233
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L+++ ++V +V L +E SL+ GE D + + V+
Sbjct: 234 IAVELDLTPERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVES 285
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 286 AAFLLLREHLEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKT 345
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 346 LSRLRDHAFADQLRGYL 362
>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 = 164 bits (414), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 102/302 (33%), Positives = 169/302 (55%), Gaps = 35/302 (11%)
Query: 230 RLKERLGCEPSMEQLAASLRI----------------------SRPELQSILMECSLARE 267
RL +LG PS+E+ AA I + P+L+ I E A+E
Sbjct: 126 RLASQLGHRPSLERWAAEAHIALSELKPTLVAGKRSWAEVAGLTVPDLEQIQKEGLQAKE 185
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 186 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTMGLERAVEKFDPTKGYRFSTYAYWWIRQ 245
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ + +L + +G TP+++ IA L M+ +VR
Sbjct: 246 GITRAIATQSRTIRLPVHITEKLNKIKKVQRQLSQTQGHTPTIEEIAAALEMTPPQVREV 305
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIV 444
+ + SL+ + G+ + + D + +P + AL+ E+ KL +
Sbjct: 306 LLRVPRSVSLEIKV--------GKEKDTELGDLLEAEDISPEELLMREALQIELLKL-LA 356
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L RER++I + +G+ D + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 357 DLTSRERDVISMRFGMVDGNVYSLSEIGRALDLSRERVRQIESKALQKLRQPKRRNRVRD 416
Query: 504 ML 505
L
Sbjct: 417 YL 418
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDKV 264
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 500 KMEAML 505
++ L
Sbjct: 376 RIRDFL 381
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 183/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LL+ AE V L+++++ GL +E+L P ++ QLA
Sbjct: 147 FRQYLREIGRIPLLSAAEEVELARRVEAGLFA-------EEKLASAPDLDSQLAL----- 194
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 195 --DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 252
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 253 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 312
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L+++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 313 EVAIHLDLTPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 364
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 365 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 424
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 425 TLNKLRDHAFADQLRGYL 442
>gi|186680839|ref|YP_001864035.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC
73102]
gi|186463291|gb|ACC79092.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 378
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 181/314 (57%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + + L +LG EP+ ++A+ L ++ +
Sbjct: 70 AFFKEMARYPLLKADEEVELARRVRFLEEIRELQAALNLKLGQEPTKLEIASELEMTEKQ 129
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 130 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 189
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGV-TPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 190 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLCRNPTEGEMA 249
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L++S +++R + + SL+ G +T + ++ +P +++
Sbjct: 250 EALDISVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 304
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 305 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 364
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 365 RRPHIAKRLKGWLI 378
>gi|434388482|ref|YP_007099093.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
gi|428019472|gb|AFY95566.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
Length = 380
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 175/317 (55%), Gaps = 17/317 (5%)
Query: 187 ELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAA 246
+ ++ ++ Y++ + LL E + L++KI L L+ + +L L EP + AA
Sbjct: 66 QFTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERMREKLLNDLDREPHDREWAA 125
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 126 VASMPLNQFRHRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA 185
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGV 365
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G
Sbjct: 186 EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGR 245
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN 424
P+ + IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 246 KPTEEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEAD 295
Query: 425 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER
Sbjct: 296 GEMPEDQVSKSLLREDLEG-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 354
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 355 IRQIEAKALRKLRHPNR 371
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 129 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 188
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++++ KV
Sbjct: 189 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDITPDKV 248
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 249 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 300
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 301 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 359
Query: 500 KM 501
++
Sbjct: 360 QL 361
>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 (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 97/246 (39%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L+M++ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALDMTEDKV 264
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 500 KMEAML 505
++ L
Sbjct: 376 RIRDFL 381
>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 = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 103/300 (34%), Positives = 169/300 (56%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILM----------------------ECSLARE 267
R+ +LG PS+E+L+ I EL+ L E + A+E
Sbjct: 138 RMAAQLGHRPSLERLSKECGIESIELKPTLQAGKRQWAELVGMSVQELDEACSEGTRAKE 197
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 198 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 257
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ + KG T +V+ IA L M+ +VR
Sbjct: 258 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQTKGRTATVEDIARELKMTAPQVREV 317
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + G +T + + + V D AL+ ++++L + L
Sbjct: 318 LLKVPRSISLETKV-----GKERDTELGDLLETDALSPEELAVRD-ALRRDLHQL-LADL 370
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
RE+E+IRL +GL D + +I + + LSRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 371 TTREQEVIRLRFGLGDGVPYSLAEIGRTLELSRERVRQIESKALQKLRQPKRRNRIRDYL 430
>gi|443316147|ref|ZP_21045603.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442784247|gb|ELR94131.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 318
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 175/308 (56%), Gaps = 13/308 (4%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LLTH + + K++K + + + L E LG EPS A +
Sbjct: 8 DTIQAYLKSIGRVPLLTHEQEINYGKQVKQMMVVLALREDLMEPLGAEPSWAAWAEETGL 67
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
LQ+ + A+ K++ +N+RLV+SIA++Y + D+ DLVQ G IGL R +EKFD
Sbjct: 68 DVETLQAQVAAGEAAKSKMIEANLRLVVSIAKKYTDRNLDLLDLVQEGSIGLNRAVEKFD 127
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
+KG++ STY YWWIRQ ++RA+ E SRT+RLP H+ E + ++ A+ +L ++ G SV
Sbjct: 128 PAKGYRFSTYAYWWIRQAMTRAIAEKSRTVRLPIHVTETINKVKRAQRQLSQQLGRMASV 187
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWH 427
+ ++ +L+++ ++VR++ + SL+ GE + + +AD +P
Sbjct: 188 EEVSTFLDLTSQQVRDSLRHARRPLSLETRV--------GENNDTELADLLEADTASPED 239
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+L+ ++ L + L ++RE++ L +GL D L+ + K + +SRERVRQ+
Sbjct: 240 FATHHSLRSDLEGL-LAGLTAQQREVLILRFGLQDGNALSLAKVGKLLNISRERVRQLQQ 298
Query: 487 VALEKLKH 494
A+ KL+
Sbjct: 299 QAVNKLRQ 306
>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 (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 95/264 (35%), Positives = 153/264 (57%), Gaps = 14/264 (5%)
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
SLR + S E A+ +L N+RLV+SIA++Y N G DL+Q G GL+R +
Sbjct: 298 SLRNRVEAMNSRFKEYEQAKRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAV 357
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGV 365
+K++ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +RN +K L+EKG
Sbjct: 358 DKYEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVSKKLLQEKGR 417
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVE 422
P+++ A+ N+S ++ R + SLDR GE+ SY D +
Sbjct: 418 EPTIEETAKAANISIEETRRVMKISRHPISLDRPV--------GESEDSYFGDFIEDEAA 469
Query: 423 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
+P + LK+++++ ++ TL REREII+L YGL D T E++ + ++RERV
Sbjct: 470 ESPINAATQEMLKEKIDQ-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERV 528
Query: 482 RQVGLVALEKLKHAARKKKMEAML 505
RQ+ A+ KL+H R +++E L
Sbjct: 529 RQIEAKAVRKLQHPVRSRQLEGFL 552
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|428203439|ref|YP_007082028.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427980871|gb|AFY78471.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 407
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 171/306 (55%), Gaps = 40/306 (13%)
Query: 224 LDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL------------------- 264
+D H RL +LG PS+E+ AA+++++ EL+ L E
Sbjct: 106 VDTHD-RLVSQLGLRPSLERWAAAVKMNVFELKQALTEGKRHWAEIAGMDVQELDRIQKA 164
Query: 265 ---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY
Sbjct: 165 GIRAKEHMIEANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA 224
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQ 380
YWWIRQG++RA+ SR +RLP H+ E+L I+ + ++ +EKG + + IA+ L M+
Sbjct: 225 YWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKVQRQITQEKGRPATAEEIAKQLEMTS 284
Query: 381 KKVRNATEAIGKVFSLD----REAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKD 436
+VR+ + + SL+ ++ L L ET S DN V +L+
Sbjct: 285 GQVRDMLMRVPRSVSLEVKVGKDKDTELVDLL-ETEDSSPEDNLVSE---------SLRK 334
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
++ L + L RERE+I++ YG D + DI + + LSRERVRQ+ AL+KL+
Sbjct: 335 DLQHL-LADLTTREREVIQMRYGFQDGTSYSLADIGRALDLSRERVRQIEAKALQKLRQP 393
Query: 496 ARKKKM 501
R+ ++
Sbjct: 394 KRRNQV 399
>gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma
akashiwo]
Length = 404
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 175/320 (54%), Gaps = 6/320 (1%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ +K YVK + + ++LT E + L+++IK G+ ++ + L++ LG +P+ E+ + +
Sbjct: 73 DTMKEYVKDLRTVDMLTAQEEILLTRQIKRGMEIEKALVTLEKTLGRKPTEEEWVNFVGL 132
Query: 251 -SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
S +++ L S ++ ++ +N+RLV+S A+ Y G DLVQ G GL + EKF
Sbjct: 133 KSIDDIRKNLKRASKSKSAIINANLRLVVSTAKAYQYRGVSFQDLVQEGTCGLHKATEKF 192
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D KGF+ STY WWI+QG+ RA+ + SR +RLP H+H+ L IR AK E P+
Sbjct: 193 DPRKGFRFSTYATWWIKQGIMRAVTDQSRVVRLPVHVHDALFHIRRAKANFWTEHLREPT 252
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPW 426
+ +AE ++ +K+ KV S+D+ E I+D N P
Sbjct: 253 LAELAEATGLTPQKIVFYDTVKDKVSSIDKTVGIGTKTNSMEKSQIAISDMCKDSRNKPE 312
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 485
+L+ ++++L I TL RE++++R+ YGLD E T E+I ++RERVRQ+
Sbjct: 313 ETAQVESLRQDISRL-INTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQIE 371
Query: 486 LVALEKLKHAARKKKMEAML 505
AL KL+ R +++ L
Sbjct: 372 ARALHKLRQPYRNHRLKGQL 391
>gi|440680165|ref|YP_007154960.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428677284|gb|AFZ56050.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 327
Score = 163 bits (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 97/315 (30%), Positives = 178/315 (56%), Gaps = 15/315 (4%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
+S + + ++ Y++ + LLT + + K+++ ++L D K L ++LG EPS+ +
Sbjct: 11 LSTKFTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALSKKLGHEPSLTE 70
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
A + S E+ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL
Sbjct: 71 WATHVNQSENEVTQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLE 130
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
RG+EKFD +G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K
Sbjct: 131 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQK 190
Query: 364 -GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 422
G +P+ IA+ L + ++R + SLD G+ + + + +
Sbjct: 191 LGRSPTPTEIAKELELEPAQIREYLNMARQPVSLDVRV--------GDNQDTELQEMLED 242
Query: 423 NNP---WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
+ P ++ ++ L+ ++N L + L ++RE++ L +GL D L+ + +R+ LSR
Sbjct: 243 DGPSPEYYTTQEF-LRQDLNNL-LAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSR 300
Query: 479 ERVRQVGLVALEKLK 493
ERVRQ+ AL L+
Sbjct: 301 ERVRQLEHQALAHLR 315
>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 (413), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 93/265 (35%), Positives = 160/265 (60%), Gaps = 13/265 (4%)
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A +S EL I+ + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R
Sbjct: 164 AEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLER 223
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 363
+EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L + K
Sbjct: 224 AVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSK 283
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRV 421
G T S++ IA+ ++M+ +++R + + SL+ + G+ + + D
Sbjct: 284 GRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV--------GKDKDTELGDLLETD 335
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+ +P + +L+ E+ +L + L RER++I + +GL D + + I K + LSRER
Sbjct: 336 DISPEELIMRESLQQELKQL-LADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRER 394
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
VRQ+ AL+KL+ R+ ++ L
Sbjct: 395 VRQIESKALQKLRQPKRRNRIRDFL 419
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 172/303 (56%), Gaps = 21/303 (6%)
Query: 215 SKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILM-------ECSLARE 267
S + KT L +D + L + S+ ++ S + EL SI+ E A+
Sbjct: 332 SARAKTSLRAEDFERLLGKASESIASLREIEESTGVDANELMSIVQQVREGEEESKAAKM 391
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ
Sbjct: 392 QLIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 451
Query: 328 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 386
++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ +++ +KVR
Sbjct: 452 AITRAIADQARTIRIPVHMIETINKLVRTSRNLVQELGREPTPEEIADKMDLPVEKVR-- 509
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLII 443
KV + +E SL GE S + D + N P V + LK++V + ++
Sbjct: 510 -----KVLKIAKEPI-SLETPIGEEEDSSLGDFIEDKNTVSPAEAVISFNLKEQV-RSVL 562
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE E+++L +G+D + T E++ K+ ++RER+RQ+ AL KL+H R K +
Sbjct: 563 HTLSAREAEVLKLRFGIDTDSDHTLEEVGKKFNVTRERIRQIEAKALRKLRHPTRSKILR 622
Query: 503 AML 505
L
Sbjct: 623 TFL 625
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +LV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 170 AGRRLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 229
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
++Q ++R+L + SRT+RLP H+ E + IR A+ L K G PS++ +AE +NMS+K+V
Sbjct: 230 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVKLGREPSMEEVAEEVNMSEKRV 289
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 290 TELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-TNASTEDKAESFLLREEIDSM-L 343
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L RER++I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ KK+
Sbjct: 344 QGLNPRERDVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSKKIR 403
Query: 503 AML 505
L
Sbjct: 404 DFL 406
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299]
gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299]
Length = 595
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 111/308 (36%), Positives = 176/308 (57%), Gaps = 6/308 (1%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
+K Y+K + + LLT AE V L+K+I+ + L+ RL+E G EP+ A I+
Sbjct: 272 MKTYLKDIGTVSLLTGAEEVELAKRIQDLMYLNSVCERLEEENGGKEPTRFMWAIECNIT 331
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ L E A+ ++ +N+RLV+SIA+RY N DL+Q G +GL+RG EKFD
Sbjct: 332 EQELERRLEEGKRAKNAMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAEKFDF 391
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+G+K STY +WWIRQ V+R++ + SRT+RLP HL E + + + ++ K G P+ +
Sbjct: 392 KRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQMVLKLGRDPTHE 451
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A+ + M+ +K++ +A SL + S NG T + D+ E +P
Sbjct: 452 ELADAMEMTVEKIKQIKKASLVPISLSQTVNNS-NGEDKRTVEDTLIDDYTE-HPEGETG 509
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVAL 489
LK+++ ++ TL RER+++RL YGLD T E+I ++RER+RQ+ AL
Sbjct: 510 KVLLKEDLEN-VLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERIRQIEAKAL 568
Query: 490 EKLKHAAR 497
KL+ +R
Sbjct: 569 RKLRQPSR 576
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 151/242 (62%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 253 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ + ++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGRVFNVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KM 501
++
Sbjct: 364 QL 365
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 179/318 (56%), Gaps = 22/318 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL-----A 245
+ ++ Y++ + LL E + L++KI L L+ + + +R+G E++ A
Sbjct: 88 DSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPDTLWA 147
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+++S PE + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 148 EEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 207
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKG 364
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ KL +E G
Sbjct: 208 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKLLSQELG 267
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 423
P+ + IA + ++ +K+R F P SL G+ S + D +E+
Sbjct: 268 RKPTEEEIATRMEITIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 317
Query: 424 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 479
+ P V L++++ ++ TL RER++++L YGLD + T E+I + ++RE
Sbjct: 318 DGETPEDRVAKVLLREDLES-VLETLTARERDVLKLRYGLDDGRMKTLEEIGQIFNVTRE 376
Query: 480 RVRQVGLVALEKLKHAAR 497
R+RQ+ AL KL+H R
Sbjct: 377 RIRQIEAKALRKLRHPNR 394
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>gi|428203741|ref|YP_007082330.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427981173|gb|AFY78773.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 328
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 185/313 (59%), Gaps = 15/313 (4%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + K+++ ++L + K L +LG EPS+ + A
Sbjct: 13 PVFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMTLLEKKEELASKLGHEPSLTEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+++ EL + + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 NYVQLGEDELNRAIAQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L ++ G
Sbjct: 133 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELAQQLG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN- 423
+ + IA+ L++ ++R + S+ R+ SL+ G+ + ++D +E+
Sbjct: 193 RSATPGEIAQALDLEPAQIR-------EYLSMARQPV-SLDVRVGDNQDTELSD-LLEDE 243
Query: 424 --NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+P + + L+ ++N L + L ++RE++ L +GL D + L+ I +R+ +SRER
Sbjct: 244 GISPDNYITQELLRQDLNNL-MAELTPQQREVLSLRFGLEDGKELSLAKIGQRLNISRER 302
Query: 481 VRQVGLVALEKLK 493
VRQ+ AL +L+
Sbjct: 303 VRQLEHQALAQLR 315
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 171/308 (55%), Gaps = 7/308 (2%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + + + K + LL E + L++++K ++ ++ E L P+ ++A +
Sbjct: 76 LADDAVGAFFKEMARYPLLKADEEIELARQVKFLADVEALSKKMGEELKRTPTRLEMANA 135
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
L S + Q L A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R E
Sbjct: 136 LHCSEADFQHRLQYARSAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAE 195
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 366
KFD KG+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ + L ++ T
Sbjct: 196 KFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKTQRELRKQLNRT 255
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P+ +A L+++ +++R+ + K SL+ G +T + ++ +P
Sbjct: 256 PTEAELAAELDLTPEQLRSLQQVRRKSLSLNHRV-----GKGEDTELMELLEDGSTLSPE 310
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 485
+++ ++ E++ ++ L ERE++II L YGL E T E++ LSRERVRQ+
Sbjct: 311 SRMNESMMRQEISDVLTEVLTEREKDIISLRYGLTTGEPHTLEEVGGIFNLSRERVRQIQ 370
Query: 486 LVALEKLK 493
A+ KL+
Sbjct: 371 TKAMRKLR 378
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 183/319 (57%), Gaps = 29/319 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+L P ++ QL
Sbjct: 93 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLSSTPDLDSQLGL----- 140
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 141 --DLDKLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 198
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 199 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 258
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 259 EVAAHLDLPGERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDATSPVE 310
Query: 431 DWA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
A L++ ++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 311 SAAFLLLREHLDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIES 369
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 370 KTLNKLRDHAFADQLRGYL 388
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 177/304 (58%), Gaps = 23/304 (7%)
Query: 214 LSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSIL-------MECSLAR 266
+SKK K + +++ ER+ E S +AA+ ++ PE + I+ E +A+
Sbjct: 379 MSKKDKKWAAFAENEADPVERIRAEVS--DIAAATGMALPEFRRIVNMVQKGEREARIAK 436
Query: 267 EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIR 326
+++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIR
Sbjct: 437 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 496
Query: 327 QGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 385
Q ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M +KVR
Sbjct: 497 QAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR- 555
Query: 386 ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKDEVNKLI 442
KV + +E SL G+ S++ D + N VD LK+ V + +
Sbjct: 556 ------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR-V 607
Query: 443 IVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +KM
Sbjct: 608 LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKM 667
Query: 502 EAML 505
+ L
Sbjct: 668 RSFL 671
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 180/322 (55%), Gaps = 31/322 (9%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+ + LLT E V L+K+++ GL + E+LAA +
Sbjct: 118 DSVRQYLSQIGRVRLLTAEEEVDLAKRVEAGLF----------------AAEKLAADTGL 161
Query: 251 S---RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+ R +L + + +A+ +LV +N+RLV+SIA+RY G DL+Q G +GL+R +E
Sbjct: 162 AVRLRADLTWVERDGEVAKSRLVEANLRLVVSIARRYVGRGMLFLDLIQEGNLGLIRAVE 221
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 222 KFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGRE 281
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P+ + IA+ ++++ KVR + + SL+ GE S++ D +++
Sbjct: 282 PTPEEIAKEMDLTPDKVREIQKVAQEPISLETPI--------GEEEDSHLGDFIEDSDAV 333
Query: 427 HGVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
VD + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ
Sbjct: 334 VPVDAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQ 393
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ L KL+H +R +K+ L
Sbjct: 394 IESKTLSKLRHPSRSQKLRDYL 415
>gi|113954561|ref|YP_729335.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
gi|113881912|gb|ABI46870.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
Length = 335
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 182/306 (59%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK-ERLGCEPSMEQLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + LK +R G E + E++A + +S
Sbjct: 27 VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKDQRGGEEVAREEVAKAAGVS 86
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 87 AAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 146
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TPSV
Sbjct: 147 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVT 206
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A ++ + +++V++ + SL+ + +G E D + P V+
Sbjct: 207 ELASFVELPEEEVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDGEL---PSDQVE 260
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---GL 486
LK ++ L + L E + +++R+ YG+D +E ++ I + IG+SR+RVR + GL
Sbjct: 261 GECLKGDLRDL-LSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRDRVRNLERDGL 319
Query: 487 VALEKL 492
L +L
Sbjct: 320 AGLRRL 325
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 113/327 (34%), Positives = 170/327 (51%), Gaps = 59/327 (18%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL AE V L+K+I+ GL H L+ K+RLG + +L
Sbjct: 26 YLNGIGKTALLDAAEEVELAKRIEAGLYAQ-HLLKTKKRLGQN------------RKRDL 72
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++I+ + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 73 EAIVRDGEEARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGF 132
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL--------------E 361
K STY WWIRQ ++R + + SRT+RLP HL E++ + K L E
Sbjct: 133 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQTLGREPTDEELAE 192
Query: 362 EKGVTPSVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
E G+ V++IA+ L+ S+ V + EA F D EA + N + E H+
Sbjct: 193 ESGI--PVEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVIAELLHTD 250
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRI 474
I + ++ TL ERE+++IRL +GLD + T + I K
Sbjct: 251 I-----------------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLF 287
Query: 475 GLSRERVRQVGLVALEKLKHAARKKKM 501
GLSRERVRQ+ + KL+H R ++
Sbjct: 288 GLSRERVRQIEREVMAKLRHGERADRL 314
>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 = 109/326 (33%), Positives = 182/326 (55%), Gaps = 31/326 (9%)
Query: 175 NGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKER 234
+G+ + +P+L + Y+ + LLT AE V L+++I+ GL + E+
Sbjct: 54 HGAADRTAAPTPDLFRQ----YLGEIGRIPLLTAAEEVELARRIEAGLFAE-------EK 102
Query: 235 LGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 294
L P ++ A +L ++++ A+ +L+ +N+RLV+SIA+RY G + DL
Sbjct: 103 LARTPDLDSRLAG------DLDTLVVRGRTAKRRLIEANLRLVVSIAKRYAGRGLTLPDL 156
Query: 295 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LI 353
VQ G +GL+R +EKFD +GFK STY WWIRQ +SRAL + +RT+R+P H+ E + ++
Sbjct: 157 VQEGNLGLIRAVEKFDHERGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVV 216
Query: 354 RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG--ET 411
R + L+E G P+ + +A +L + ++V G+V L +E SL+ G +T
Sbjct: 217 RTQRRILQEHGREPTAEEVAAHLGLPPERV-------GEVLRLAQEPV-SLHAPVGGEDT 268
Query: 412 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDI 470
+ ++ +P L+ + ++ TLGERERE+++L YGL D T E+I
Sbjct: 269 ALGDLIEDGDAASPVESAAFLLLRQHLEA-VLCTLGEREREVVQLRYGLVDGRPRTLEEI 327
Query: 471 SKRIGLSRERVRQVGLVALEKLK-HA 495
+ G++RER+RQ+ L KL+ HA
Sbjct: 328 GRLFGVTRERIRQIESNTLGKLRAHA 353
>gi|427724795|ref|YP_007072072.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427356515|gb|AFY39238.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 379
Score = 163 bits (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + +L+E P+ ++ A +
Sbjct: 68 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLEEHESRVPTDKEWAEAAG 127
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 128 MPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 187
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 188 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPT 247
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E +
Sbjct: 248 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 297
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 298 PEDQVSKSLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 356
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 357 IEAKALRKLRHPNR 370
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 (412), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 90/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KMEAML 505
+ +
Sbjct: 363 PLRDFI 368
>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 (412), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 163 bits (412), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 95/247 (38%), Positives = 152/247 (61%), Gaps = 14/247 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+EKL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY W
Sbjct: 190 VAKEKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATW 249
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 382
WIRQ V+RAL +++RT+R+P H+ E + + + +L E G PS +A L+M+++K
Sbjct: 250 WIRQSVTRALADHARTIRVPVHMVETINRMSKMQRKLTLELGYEPSTKELATALDMTEEK 309
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
V ++ + RE SL GE S + D +NN P ++ L++ ++
Sbjct: 310 VL-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNTVTPEANIESVMLREHID 361
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+++ L +RERE+I L +GL D T E++ K ++RER+RQ+ AL KL++ R
Sbjct: 362 -VLLQDLKDREREVIILRFGLRDGHPRTLEEVGKIFNVTRERIRQIEAKALRKLRNPVRS 420
Query: 499 KKMEAML 505
KK++ L
Sbjct: 421 KKIKDFL 427
>gi|408532063|emb|CCK30237.1| RNA polymerase principal sigma factor hrdA [Streptomyces davawensis
JCM 4913]
Length = 437
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 181/318 (56%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+L P ++ QL
Sbjct: 141 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLSNTPDLDSQLGL----- 188
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 189 --DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 246
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 247 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 306
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 307 EVAAHLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 358
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 359 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 418
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 419 TLNKLRDHAFADQLRGYL 436
>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 = 93/265 (35%), Positives = 160/265 (60%), Gaps = 13/265 (4%)
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A +S EL I+ + A+E ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R
Sbjct: 164 AEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLER 223
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 363
+EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L + K
Sbjct: 224 AVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSK 283
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRV 421
G T S++ IA+ ++M+ +++R + + SL+ + G+ + + D
Sbjct: 284 GRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV--------GKDKDTELGDLLETD 335
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+ +P + +L+ E+ +L + L RER++I + +GL D + + I K + LSRER
Sbjct: 336 DISPEELIMRESLQHELKQL-LADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRER 394
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
VRQ+ AL+KL+ R+ ++ L
Sbjct: 395 VRQIESKALQKLRQPKRRNRIRDFL 419
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>gi|218247332|ref|YP_002372703.1| RNA polymerase sigma factor [Cyanothece sp. PCC 8801]
gi|218167810|gb|ACK66547.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8801]
Length = 328
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 102/319 (31%), Positives = 182/319 (57%), Gaps = 13/319 (4%)
Query: 177 SKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG 236
SK + M S +++ + Y+ + LLTH + + K+++ +SL + K +L + G
Sbjct: 8 SKTKQPMYSADMV----RTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQG 63
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
EPS ++ A ++ + PEL+ + + + A+ K++ +N+RLV++IA++Y + DL+Q
Sbjct: 64 TEPSDKEWAKAVNLKEPELKKTIEQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA 356
G +GL RG+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 357 KLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
+ L +K G + + IA L + ++R + SLD G +T S
Sbjct: 184 QRELSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRV-----GDNQDTELSE 238
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRI 474
+ ++ E +P + L+ ++ L + L ++R ++ L +GL D + L+ I K++
Sbjct: 239 LLEDH-EASPDQYITQELLRQDLKNL-MEELTPQQRSVLILRFGLEDGKELSLAKIGKKL 296
Query: 475 GLSRERVRQVGLVALEKLK 493
+SRERVRQ+ AL +L+
Sbjct: 297 NISRERVRQLEHQALAQLR 315
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT E V L+++++ GL + KLRL L + +++
Sbjct: 102 FRQYLREIGRIPLLTAVEEVELARRVEAGL-FAEEKLRLAPDLDSQLALD---------- 150
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 151 --LDKLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 208
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 209 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEE 268
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 269 VAAQLDLPPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 320
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 321 AAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKT 380
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 381 LNKLRDHAFADQLRGYL 397
>gi|123967051|ref|YP_001012132.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9515]
gi|123201417|gb|ABM73025.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9515]
Length = 333
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 94/307 (30%), Positives = 182/307 (59%), Gaps = 16/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L + E +PS+E+LAA L +S
Sbjct: 26 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTDNKPSVEELAAKLNLSS 85
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 86 SQIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 145
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP++
Sbjct: 146 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTISE 205
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 206 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 257
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L+ L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 258 EMDCMRGDLHSLL-HQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 316
Query: 486 LVALEKL 492
L L +L
Sbjct: 317 LRGLRRL 323
>gi|6463980|dbj|BAA86957.1| group 2 sigma factor RpoD3 [Synechococcus sp. PCC 7942]
Length = 320
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 101/305 (33%), Positives = 177/305 (58%), Gaps = 8/305 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 131
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTPSVDR 371
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ + +L ++ T ++
Sbjct: 132 TKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLSTATLPE 191
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ +VR+ E SLD + + G+ + + R E
Sbjct: 192 LAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLETDMQRRRKEFTL-----Q 246
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+++ ++++L + L E++R++I L YGL D + +T I R+ +SRERVRQ+ AL
Sbjct: 247 ASMRRDIDRL-LDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALH 305
Query: 491 KLKHA 495
L+ A
Sbjct: 306 TLRQA 310
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 227 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 286
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 287 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 346
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 347 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 399
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 400 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 459
Query: 502 EAML 505
+ +
Sbjct: 460 KDFM 463
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + ERL P ++ A
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------ERLAGTPDLDSRLAG----- 114
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 115 -DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 173
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ +
Sbjct: 174 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAED 233
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L+++ ++V + + L +E SL+ GE D + + V+
Sbjct: 234 IAVDLDLTPERVTD-------ILRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVES 285
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 286 AAFLLLREHLEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKT 345
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 346 LSRLRDHAFADQLRGYL 362
>gi|456390566|gb|EMF55961.1| hrdA protein [Streptomyces bottropensis ATCC 25435]
Length = 405
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT E V L+++++ GL + ERLG ++ A
Sbjct: 109 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAE-------ERLGNASDLDTRLAL----- 156
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 157 -DLDKLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 215
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ D
Sbjct: 216 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDE 275
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L+++ +V +V L +E SL+ GE + D + + V+
Sbjct: 276 VAAHLDLAPGRV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 327
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 328 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 387
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 388 LNKLRDHAFADQLRGYL 404
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/327 (32%), Positives = 182/327 (55%), Gaps = 39/327 (11%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA-- 245
L + ++ Y+K + +LLT + V L+ KI+ G + EQL
Sbjct: 135 LTGDPVRMYLKEIGKVDLLTADDEVHLAMKIEAG----------------NKATEQLEKA 178
Query: 246 --ASLRISRPELQSILMECSL---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLI 300
+ +SR E++ ++ E + A++ L +N+RL +SIA+RY G DL+Q G +
Sbjct: 179 EKGEIELSRSEMRRLMREEQVGLDAKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNL 238
Query: 301 GLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLR 359
GL+R +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R +
Sbjct: 239 GLIRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQL 298
Query: 360 LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN 419
L+E G PS + I + +NMS K+R ++ + +E SL GE S + D
Sbjct: 299 LQELGRDPSPEEIGKEMNMSPDKIR-------EIQKISQEPV-SLETPIGEEEDSSLGDF 350
Query: 420 RVENN----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRI 474
+E++ P D L++++N+ ++ +L +RER++I+ +GL D T E++ +
Sbjct: 351 -IEDSTAVAPPDAASDSMLREQLNQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGREF 408
Query: 475 GLSRERVRQVGLVALEKLKHAARKKKM 501
G++RER+RQ+ L KL+H +R ++
Sbjct: 409 GVTRERIRQIESKTLAKLRHPSRSARL 435
>gi|33864638|ref|NP_896197.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. WH 8102]
gi|33632161|emb|CAE06617.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8102]
Length = 332
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 95/305 (31%), Positives = 180/305 (59%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L ++++ + ++ + L+ R G +PS ++LA + ++
Sbjct: 25 VRSYLRDIGRVPLLTHEQEITLGRQVQDLMDIEAMQTELESRDGDKPSRDKLAKASGLTP 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 85 LQLKRKLQHGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP++
Sbjct: 145 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTITE 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+Y+ + + V++ + SL+ + +G E D + P V++
Sbjct: 205 LAQYVELPEDDVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDA---DLPSDQVEE 258
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GLV 487
+K ++ L + L + +++R+ YG+D E ++ I + +G+SR+RVR + GL
Sbjct: 259 DCMKGDLRSL-LGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLA 317
Query: 488 ALEKL 492
L ++
Sbjct: 318 GLRRI 322
>gi|158334481|ref|YP_001515653.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158304722|gb|ABW26339.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/310 (34%), Positives = 175/310 (56%), Gaps = 17/310 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ + Y++ + LL H + + K+++ + L + K +L E+L EP++ + A
Sbjct: 8 KDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLSEWADQAD 67
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
I +LQ L A K+V SN+RLV+SIA++Y+ + DL+Q G IGL RG+EKF
Sbjct: 68 IPVSQLQKELKLGQTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKF 127
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 368
D +KG++ STY YWWIRQ ++RA+ E RT+RLP H++E+L +R K +L K P+
Sbjct: 128 DPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLNKLRKVKRQLSLKLHRDPT 187
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
V +A + +S KKV SLD + G+ ++ + + + +P
Sbjct: 188 VAELATEMELSPKKVEAFLSYARHSISLDVQV--------GDQQNTELWE--LLEDPHAS 237
Query: 429 VDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
+D+A L+ ++ KL+ V L ++RE+I L YGL D+ LT + +R+ +SRE VR+
Sbjct: 238 PEDYATASYLQSDLAKLLNV-LNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRR 296
Query: 484 VGLVALEKLK 493
V A + L+
Sbjct: 297 VEREAFQLLR 306
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D KG+K STY WW
Sbjct: 122 AKDKLTESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRKGYKFSTYATWW 181
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + I R ++ ++E G P+ + I E L M ++
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKIYRTSRRLMQELGREPTPEEIGEELEMDGNRI 241
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++F + +E SL GE S++ D + VD + LKD + +
Sbjct: 242 R-------EIFKIAQET-TSLEAPVGEDQESFLGDFIPDETTLSPVDQASKQLLKDHLEE 293
Query: 441 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE ++++L +GL+ + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLGTLSEREAKVLKLRFGLEGSKAMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 500 KMEAML 505
K++ L
Sbjct: 353 KLQDYL 358
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 213 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 272
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 273 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 332
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 333 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 385
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 386 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 445
Query: 502 EAML 505
+ +
Sbjct: 446 KDFM 449
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|434404640|ref|YP_007147525.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428258895|gb|AFZ24845.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 377
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 176/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + D + L LG S Q+A L ++ +
Sbjct: 69 AFFKEMARYPLLKPDEEVELARRVRFLEEIKDLQESLSTELGQPASKLQVANQLEMTEKQ 128
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 129 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 188
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K PS +A
Sbjct: 189 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLSRNPSEAEMA 248
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L ++ +++R + + SL+ G +T + ++ +P +++
Sbjct: 249 EALEITVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 303
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 304 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 363
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 364 RRPHIAKRLKGWLI 377
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 104/316 (32%), Positives = 173/316 (54%), Gaps = 45/316 (14%)
Query: 209 AEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL---- 264
AE RL +++ DH L +LG PS++ A + + EL+ IL L
Sbjct: 77 AEFARL-------ITVHDH---LAAQLGHRPSLKTWAKTGNLEITELKQILTTGKLCWAQ 126
Query: 265 ------------------AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
A+ L+ +N+RLV+SIA++Y N G ++ DL+Q G +GL + +
Sbjct: 127 IAKLELKELEMIQKAGIEAKNTLLAANLRLVVSIAKKYQNRGLELLDLIQEGTLGLEKAV 186
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGV 365
+KFD +KG++ STY YWWIRQG++RA+ S T+R+P H+ E+L I+ A+ ++ ++KG
Sbjct: 187 DKFDPTKGYRFSTYAYWWIRQGITRAIATQSHTIRIPVHITEKLNKIKKAQRKISQQKGY 246
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVEN 423
TP+++ IA L + K++R I + SL+ + G+ + + D E+
Sbjct: 247 TPTLEDIATELGTTAKQIREILVRIPRSVSLESKI--------GKDKDTELGDLLETTES 298
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
+P + +L ++ KL + L RERE+I L YGL + C + +I + + LSRERVR
Sbjct: 299 SPEEVLIQESLHQDLEKL-LAQLTRREREVISLRYGLKEGMCYSLSEIGRILALSRERVR 357
Query: 483 QVGLVALEKLKHAARK 498
Q+ A++KL+ R+
Sbjct: 358 QIETKAMQKLRQPQRR 373
>gi|443309377|ref|ZP_21039100.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442780574|gb|ELR90744.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 386
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 177/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L ++ + +L +RL +P + A ++
Sbjct: 75 EDSIRLYLQEIGRIRLLRADEEIELARKIAELLQMERVREQLCDRLDRDPHDSEWAEAVE 134
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 135 LPINSFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 194
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 195 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 254
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 255 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 304
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ K ++ L RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 305 PEDQVSKNLLREDLEK-VLDGLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 363
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 364 IEAKALRKLRHPNR 377
>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 (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 106/319 (33%), Positives = 183/319 (57%), Gaps = 29/319 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+L P + QLA
Sbjct: 70 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLANTPDPDSQLAV----- 117
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 118 --DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 175
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 176 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 235
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L ++ +E + +V L +E SL+ GE + D + + V+
Sbjct: 236 EVATHLELT-------SERVSEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 287
Query: 431 DWA---LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 486
A L++ ++ ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 288 SAAFLLLREHLDA-VLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIES 346
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 347 KTLNKLRDHAFADQLRGYL 365
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 178/318 (55%), Gaps = 22/318 (6%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL-- 248
+ ++ Y++ + LL E + L++KI L L+ + + +R+G E++ +L
Sbjct: 89 DSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPETLWA 148
Query: 249 ---RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
++S PE + L A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 149 EEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 208
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 364
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ +L +E G
Sbjct: 209 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKQLSQELG 268
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVEN 423
P+ + IA + ++ +K+R F P SL G+ S + D +E+
Sbjct: 269 RRPTEEEIATRMEITIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IES 318
Query: 424 ---NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRE 479
P V L++++ ++ TL RER++++L YGLD + T E+I + ++RE
Sbjct: 319 EGETPEERVAKVLLREDLES-VLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRE 377
Query: 480 RVRQVGLVALEKLKHAAR 497
R+RQ+ AL KL+H R
Sbjct: 378 RIRQIEAKALRKLRHPNR 395
>gi|133468|sp|P27785.1|RPOD_STRAU RecName: Full=RNA polymerase sigma factor RpoD
Length = 317
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 183/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 68
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 69 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 126
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 127 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAE 186
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L ++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 187 EVAVHLELTPERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 238
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L+ E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 239 SAAFFLRCEHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 298
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 299 TLNKLRDHAFADQLRGYL 316
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 96/299 (32%), Positives = 169/299 (56%), Gaps = 37/299 (12%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSIL----------------------MECSLARE 267
RL LG PS+E+ A + I+ EL+ +L + A+E
Sbjct: 144 RLTAELGHRPSLERWAKNAEINVTELKPLLSAGKRRWAEIAGLTVEQLEQIQTQGVRAKE 203
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 204 HMIQANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 263
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ + ++ +EKG TP+++ IA L ++ K++R+
Sbjct: 264 GITRAIATQSRTIRLPVHITEKLNKIKKVQRKIAQEKGRTPTIEEIAAELEITPKQLRDV 323
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNK---LII 443
+ + SL+ + G+ + + D + +D +++ + + ++
Sbjct: 324 LLRVPRSVSLETKV--------GKDKDTELGD--LLETDTISPEDVLMRESLQRDLQYLL 373
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
L +RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 374 TDLSDRERDVILMRFGLGDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNRV 432
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 31 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 90
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE + M+ KV
Sbjct: 91 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKV 150
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 151 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 202
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 203 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 261
Query: 500 KM 501
++
Sbjct: 262 QL 263
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 339
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 502 EAML 505
+ +
Sbjct: 453 KDFM 456
>gi|427417818|ref|ZP_18908001.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425760531|gb|EKV01384.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 376
Score = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 110/314 (35%), Positives = 176/314 (56%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + L + + EP AA++
Sbjct: 65 EDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDDLSDGMDHEPDDADWAAAVD 124
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 125 MPLPAFRRRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 184
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 185 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPT 244
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IA + M+ +K+R F P SL G+ S + D +E++
Sbjct: 245 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IESDGET 294
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 295 PEDEVSKSLLREDLEG-VLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 353
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 354 IEAKALRKLRHPNR 367
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 109/310 (35%), Positives = 174/310 (56%), Gaps = 25/310 (8%)
Query: 206 LTHAEVVRLSKKIKT-GLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILM 260
LT V + + T G+++DD K+ LKE +G P + E++ +L+I Q+
Sbjct: 69 LTEDNVDDFEESLNTDGITIDDPVKVYLKE-IGRVPLLTPEEEIDLALKI-----QAGGP 122
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY
Sbjct: 123 EGEKAKQRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDHTKGFKFSTY 182
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + ++ + L E G PS + IAE L+MS
Sbjct: 183 ATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSQLLHEYGHDPSAEEIAERLDMS 242
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKD 436
KVR + SL+ GE S++ D +++ P LK+
Sbjct: 243 VDKVREIMRVAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPVPAEAASQTLLKE 294
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
++ ++ TL RE +++RL +GL D T E++ K ++RER+RQ+ AL KL+H
Sbjct: 295 QLAD-VLKTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHP 353
Query: 496 ARKKKMEAML 505
+R KK+ L
Sbjct: 354 SRSKKLRDFL 363
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 145 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 204
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A+ L+MS+ KV
Sbjct: 205 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELADALDMSEDKV 264
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D +NN P V+ L++ ++
Sbjct: 265 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVVTPEGNVESVMLREHIDA 316
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 317 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 375
Query: 500 KMEAML 505
++ L
Sbjct: 376 RIRDFL 381
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMGLTADKV 339
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEENDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 502 EAML 505
+ +
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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 160 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 219
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++M ++V
Sbjct: 220 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMSMPVERV 279
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D ++N D A LK+++N+
Sbjct: 280 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFSLLKEQLNE 331
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 332 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 390
Query: 500 KMEAML 505
K++ L
Sbjct: 391 KLKDYL 396
>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 (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 4e-37, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + I + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEIGAEMELTADKV 339
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 502 EAML 505
+ +
Sbjct: 453 KDFM 456
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 45 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 104
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 105 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 164
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 165 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 216
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K
Sbjct: 217 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSK 275
Query: 500 KM 501
+
Sbjct: 276 PL 277
>gi|427738916|ref|YP_007058460.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427373957|gb|AFY57913.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 378
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 175/314 (55%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + +E+LG P +A + I + +
Sbjct: 70 AFFKEMARYPLLKPDEEVELARRVRILEEVRQAQAAAQEKLGYFPDKAAIAKEMGIVQKQ 129
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 130 LEHRLYQGKVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 189
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ + +A
Sbjct: 190 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPTEEELA 249
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L++ ++R + + SL+ G +T + ++ +P +++
Sbjct: 250 EVLDIPANQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEARMNESM 304
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 305 MRQEIWEVLGDVLTPREKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 364
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 365 RRPHIAKRLKGWLI 378
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 108/317 (34%), Positives = 180/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + ERL P ++ A
Sbjct: 99 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------ERLTGTPDLDSRLAG----- 146
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 147 -DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 205
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ +
Sbjct: 206 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAED 265
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L+++ ++V TE V L +E SL+ GE D + + V+
Sbjct: 266 IAVELDLTPERV---TE----VLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVES 317
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 318 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKT 377
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 378 LSRLRDHAFADQLRGYL 394
>gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545]
gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545]
Length = 587
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 106/312 (33%), Positives = 175/312 (56%), Gaps = 13/312 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKE-----RLGCEPSMEQLAAS 247
+K Y+K + S LLT + V L+ +I+ + L+ + +L+E + E S A +
Sbjct: 256 MKTYLKDIGSVSLLTGEQEVELAMRIQDLVYLEGVREQLEEEAKRRKQTSEVSNFDWAIA 315
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
++ EL+ L A+ +++ +N+RLV+SIA+RY N DL+Q G +GL+RG E
Sbjct: 316 ANVTERELKERLDAGKRAKNQMIQANLRLVVSIAKRYANKSMSFQDLIQEGCVGLIRGAE 375
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 366
KFD +G+K STY +WWIRQ V+R++ + SRT+RLP HL E + + + +L K G
Sbjct: 376 KFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMSKVERQLVMKYGRD 435
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P+ + IAE ++M+ +K+ +A SL + S+N T + D+ E +P
Sbjct: 436 PTTEEIAEVMDMTVEKINQIQKASLVPISLSQ----SVNDDDSRTVEETLVDDHAE-HPD 490
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVG 485
LK+++ ++ TL RER+++RL YG+D T E+I ++RER+RQ+
Sbjct: 491 DATGKVLLKEDLEN-VLNTLSPRERDVLRLRYGMDDGRVKTLEEIGNVFSVTRERIRQIE 549
Query: 486 LVALEKLKHAAR 497
AL KL+ +R
Sbjct: 550 AKALRKLRQPSR 561
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 109/310 (35%), Positives = 171/310 (55%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT AE V L+K+I+ G+ H L G P AS R R EL
Sbjct: 37 YLNGIGKTALLTAAEEVELAKRIEAGV-FAQHMLET----GSGP------ASTR--REEL 83
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ + +A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 84 RALVRDGHVAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGF 143
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + D +A+
Sbjct: 144 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATTDELAK 203
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
++ KV + + SLD + G+ +I D+ + V L
Sbjct: 204 ESGLTPAKVSDLLDHARDPVSLDMPVGAEEDAPLGD----FIEDSDA-TDAESAVISGLL 258
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL +RE+ +IRL YGL D + T + I K GLSRERVRQ+ + KL+
Sbjct: 259 QDDLRR-VLATLDQREQSVIRLRYGLEDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLR 317
Query: 494 HAARKKKMEA 503
R K+ A
Sbjct: 318 QGERAAKLRA 327
>gi|113477826|ref|YP_723887.1| RNA polymerase subunit sigma 28 [Trichodesmium erythraeum IMS101]
gi|110168874|gb|ABG53414.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101]
Length = 384
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 165/304 (54%), Gaps = 9/304 (2%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL E + L+K I+ + + +L LG P+ ++A + + +L L +C
Sbjct: 84 LLNQKEEIELAKLIQELVVFEKLPEKLANDLGRTPTKSEVAVAAGFTESQLDHRLHQCRT 143
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG+K STY YWW
Sbjct: 144 AKRRMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 203
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQG++R + RT+RLP H+ E++ +R L P+ IA+ L +S ++
Sbjct: 204 IRQGITRTIANQGRTIRLPVHVVEQINKLRRVYRDLRRSLNRIPNDTEIAQELEISLPQL 263
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
RN + K SL+ G T ++ DN + P ++D ++ ++ +++
Sbjct: 264 RNLQQIRRKTLSLNHRL-----GTDENTELLDFLEDNE-NSTPEAQMNDMMMRQDILEVL 317
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
L RE+++I L YGL E T +++S+ I LSRERVRQ+ A+ KL+ +++
Sbjct: 318 NHVLSNREQDVISLRYGLITGEPHTLDEVSRMINLSRERVRQIQAKAMRKLRRPQVAERL 377
Query: 502 EAML 505
+ L
Sbjct: 378 KGWL 381
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 97/279 (34%), Positives = 166/279 (59%), Gaps = 18/279 (6%)
Query: 233 ERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 292
E L E M+ + SLR+ ++ L+ LA+ +L+ +N+RLV+SIA++Y N G
Sbjct: 331 EELEIEAKMD--SRSLRLILRRVEDGLIRAKLAKSELIEANLRLVVSIAKKYTNRGLQFL 388
Query: 293 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG- 351
DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E +
Sbjct: 389 DLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINK 448
Query: 352 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 411
LIR ++ ++E G P+ + IAE + +KVR KV + +E SL GE
Sbjct: 449 LIRTSRYLVQELGREPTPEEIAEKMEFPVEKVR-------KVLKIAKEPI-SLETPIGEE 500
Query: 412 HHS----YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLT 466
S +I D RV +P V + L ++ K + TL RE +++R+ +G+ +K T
Sbjct: 501 EDSHLGDFIEDKRV-ASPVDAVINLNLSEQTRK-ALATLTPREEKVLRMRFGIGEKADHT 558
Query: 467 WEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E++ + ++RER+RQ+ AL KL+H +R+K++++ +
Sbjct: 559 LEEVGQDFAVTRERIRQIEAKALRKLRHPSRRKELKSFI 597
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 184/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+L P + S R++
Sbjct: 89 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLTNTPDL-----STRLAV 136
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 137 -DLDRLVVLGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 195
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 196 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEE 255
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L ++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 256 VAAHLGLTGERV-------TEVLRLAQEPV-SLHAPVGEEEDVALGDLIEDGDAASPVES 307
Query: 432 WA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L++ ++ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 308 AAFLLLREHLDA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 366
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 367 TLGKLRDHAFADQLRGYL 384
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 106/318 (33%), Positives = 182/318 (57%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LL+ E V L+++++ GL +E+LG P ++ QLA
Sbjct: 118 FRQYLREIGRIPLLSAVEEVELARRVEAGLFA-------EEKLGNTPDLDSQLAV----- 165
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 166 --DLDRLVVLGRVAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDY 223
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 224 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 283
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 284 EVAAHLDLLPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 335
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 336 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 395
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 396 TLNKLRDHAFADQLRGYL 413
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|168704760|ref|ZP_02737037.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM
2246]
Length = 556
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 97/262 (37%), Positives = 153/262 (58%), Gaps = 8/262 (3%)
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
ASLR ++ E A+ L N+RLV+SIA++Y N G DL+Q G GL+R
Sbjct: 293 ASLRRRVGIMKQRFAEYEQAKRDLSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRA 352
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKG 364
++K++ +GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + +RN +K L+E G
Sbjct: 353 VDKYEHRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETMSKLRNVSKQLLQELG 412
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 424
P+V A+ +S ++ + + + SLDR S + G+ +I DN VE +
Sbjct: 413 REPTVQETADAAKISYEECKRVLKISRQPISLDRPVGESEDSYFGD----FIEDNSVE-S 467
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
P + + LKD++ ++ TL REREII+L YGL D T E++ + ++RERVRQ
Sbjct: 468 PVNAATNEMLKDKIEG-VLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQ 526
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ A+ KL+H R +++E L
Sbjct: 527 IEAKAVRKLQHPVRSRQLEGFL 548
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 100/277 (36%), Positives = 162/277 (58%), Gaps = 20/277 (7%)
Query: 239 PSMEQLAASLRISRPELQS----ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 294
P+ E++ LR LQ+ ++ +AR+KL +N+RLV+S+A++Y G M DL
Sbjct: 271 PTDEEVWELLRRDEAALQARWEEFVVRGDIARKKLTEANLRLVVSVAKKYGGRGMSMLDL 330
Query: 295 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LI 353
VQ G +GL+R +EKF KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E++ LI
Sbjct: 331 VQEGNLGLIRAVEKFQHHKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVEQINRLI 390
Query: 354 RNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHH 413
R ++ +E G P+ + IA + + KVR ++ + +E SL GE
Sbjct: 391 RTSRRLQQELGREPTSEEIAAEMGLPPDKVR-------EILKISQEPV-SLEMPIGEEED 442
Query: 414 SYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWE 468
S + D +E++ D A LK++V+ ++ +LG+RER ++ L +GLD T E
Sbjct: 443 SNLGDF-IEDSKALAPSDAASLKLLKEQVDD-VLGSLGDRERRVLELRFGLDDGRTRTLE 500
Query: 469 DISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ + G++RER+RQ+ AL KL+H +R KK+ L
Sbjct: 501 EVGREFGVTRERIRQIEAKALRKLRHPSRSKKLRDYL 537
>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 = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 456 AKGDLVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 515
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + ++E G PS + IA + M +KV
Sbjct: 516 IRQAITRAIADQARTIRIPVHMIETINRLVRTTRQLVQELGREPSPEEIAYKMEMPIEKV 575
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R KV + +E SL GE SY+ D +++ +P ++ L DE K
Sbjct: 576 R-------KVLKIAKEPI-SLETPIGEEEDSYLGDFIEDKIVMSPNDAAQNFNLSDET-K 626
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R K
Sbjct: 627 EVLETLTPREEKVLRMRFGIHEKSDHTLEEVGRDFSVTRERIRQIEAKALRKLRHPSRAK 686
Query: 500 KMEAML 505
K+ + +
Sbjct: 687 KLRSFV 692
>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 = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
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 = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|220907004|ref|YP_002482315.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7425]
gi|219863615|gb|ACL43954.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 327
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 185/316 (58%), Gaps = 17/316 (5%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
SM+S +++ + Y+ + LLTH + + L K+++ + L + + +L L P+
Sbjct: 13 SMVSTDMV----RTYLHEIGRVPLLTHEQEIVLGKQVQQLMELLEAREKLTTSLDRSPTA 68
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E+ A +S +L + + A++K++ +N+RLV+S+A++Y ++ DL+Q G +G
Sbjct: 69 EEWAEQANLSVADLNTAVRRGQRAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLG 128
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE 361
L RG+EKFD ++G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ A+ L
Sbjct: 129 LERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTVRLPIHITEKLNKIKKAQRVLS 188
Query: 362 EK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
++ G + + IA+ L + ++R + +L R+ SL+ G+ + + D
Sbjct: 189 QRLGRSATPAEIAQELELEPSQIR-------EYLTLARQPV-SLDLRVGDNQDTELRDLL 240
Query: 421 VEN--NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLS 477
++ +P AL+D+VN L + L ++RE++ L +GL D + L+ + +++ LS
Sbjct: 241 EDDSPSPEQYTTGEALRDDVNHL-LAELTPQQREVLTLRFGLEDGKELSLAKVGEQLSLS 299
Query: 478 RERVRQVGLVALEKLK 493
RERVRQ+ AL+ L+
Sbjct: 300 RERVRQLERQALDHLR 315
>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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|359459297|ref|ZP_09247860.1| RNA polymerase sigma-70 factor [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 174/304 (57%), Gaps = 17/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL H + V K+++ +L + K L++ L EP+ ++ A ++S +L
Sbjct: 14 YLREISRFPLLNHEQEVIFGKQVQRLTALQEMKQELQDHLDREPTQQEWAEKAQVSVAQL 73
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q L A K+V SN+RLV+SIA++Y+ + DL+Q G IGL RG+EKFD KG+
Sbjct: 74 QKELKLGHKANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGY 133
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQ ++RA+ E RT+RLP H++E+L +R + +L +K P+V +A
Sbjct: 134 RFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPTVQELAV 193
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA- 433
++++ KK+ + + SLD + G+ ++ + + + +P D +A
Sbjct: 194 EMDLAPKKIEDYLNYARRSISLDIQI--------GDQQNTELWE--LLEDPNESPDTYAT 243
Query: 434 ---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
L+ ++ KL + L ++RE+I L YGL D+ LT + +R+ +SRE VR+V A
Sbjct: 244 ASSLRSDLAKL-LQDLSPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
Query: 490 EKLK 493
+ L+
Sbjct: 303 KILR 306
>gi|126661338|ref|ZP_01732404.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110]
gi|126617371|gb|EAZ88174.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110]
Length = 328
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 174/305 (57%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LLTH + + K+++T ++L + K L +R+G EPS+++ A + I
Sbjct: 20 VRTYLHEIGRVPLLTHEQEIIYGKQVQTMMNLLEKKEELAQRVGKEPSIQEWAKEVNIEE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
LQ L + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 KALQKALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE---KGVTPSV 369
KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L + + TP+
Sbjct: 140 KGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQSLGRSATPA- 198
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
IA+ L + ++R + SLD G +T S + +++ + +
Sbjct: 199 -EIAQELEIEPSQIREFLSIARQPISLDVRV-----GDNQDTELSELLEDQGVSPDIYIT 252
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ +D N ++ L ++R ++ L +GL D + L+ I KR+ +SRERVRQ+ A
Sbjct: 253 QELLRQDLSN--LMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQLEHQA 310
Query: 489 LEKLK 493
L +L+
Sbjct: 311 LAQLR 315
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQEYGQEPTPEQIAEKMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 98/274 (35%), Positives = 165/274 (60%), Gaps = 18/274 (6%)
Query: 241 MEQLA----ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
MEQ A A L+ ++ E+ M+ A+++L+ +N+RLV+SIA++Y N G DL+Q
Sbjct: 305 MEQEAGVSIAELKRTQREIIQGDMDAEQAKKELIEANLRLVVSIAKKYTNRGLQFLDLIQ 364
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR
Sbjct: 365 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRT 424
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ ++E G PS + IA+ +++ KVR KV + +E SL GE S+
Sbjct: 425 SRQLVQELGREPSSEEIAKRMDIPVAKVR-------KVLKIAQEPI-SLETPIGEEEDSH 476
Query: 416 IAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDIS 471
+ D +R +P V + LKD+ + ++ TL RE ++I++ +GL D T E++
Sbjct: 477 LGDFIEDRSMVSPAEAVINVNLKDQTAQ-VLRTLTAREEKVIKMRFGLEDGSEHTLEEVG 535
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ ++RER+RQ+ AL KL+H +R +K+ A L
Sbjct: 536 QSFAVTRERIRQIEAKALRKLRHPSRSRKLRAFL 569
>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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY WW
Sbjct: 132 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H R K
Sbjct: 304 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPNRSK 362
Query: 500 KM 501
+
Sbjct: 363 PL 364
>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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|254432550|ref|ZP_05046253.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
gi|197627003|gb|EDY39562.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
Length = 319
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 180/317 (56%), Gaps = 24/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLG-CEPSMEQLAASLRIS 251
++ Y++ + LLTH + + L ++++ ++L++ + L R G PS +LA + +S
Sbjct: 6 VRSYLRDIGRVPLLTHEQEITLGRQVQELMALEEMEQELTMRAGGTAPSAAELAKAAGLS 65
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 66 PAVLKKRLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 125
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 126 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVT 185
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--PWH 427
+A Y+ + +++V++ L R P SL G+ + + D + P
Sbjct: 186 ELAGYVELPEEEVKDL---------LCRARQPVSLETKVGDGEDTELLDLLAGDGELPEE 236
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD------KECLTWEDISKRIGLSRERV 481
VD LK ++ L + L E + ++++ YG+D E ++ I + +G+SR+RV
Sbjct: 237 RVDGECLKGDLRAL-LEQLPELQGRVLKMRYGIDPQSAEMAEPMSLTGIGRILGISRDRV 295
Query: 482 RQV---GLVALEKLKHA 495
R + GL L +L A
Sbjct: 296 RNLERDGLAGLRRLSSA 312
>gi|56750866|ref|YP_171567.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 6301]
gi|56685825|dbj|BAD79047.1| group2 RNA polymerase sigma factor RpoD3 [Synechococcus elongatus
PCC 6301]
Length = 326
Score = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 179/309 (57%), Gaps = 16/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 18 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 77
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 78 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 137
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ + +L ++ G T ++
Sbjct: 138 TKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTATLP 197
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWH 427
+A L+++ +VR+ E SLD G+ + + D +E + P
Sbjct: 198 ELAAALDLTPAQVRDYLEKARHPLSLDLRV--------GDNQDTELGDL-LETDCTTPEE 248
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+++ ++++L + L E++R++I L YGL D + +T I R+ +SRERVRQ+
Sbjct: 249 FTLQASMRRDIDRL-LDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLER 307
Query: 487 VALEKLKHA 495
AL L+ A
Sbjct: 308 EALHTLRQA 316
>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 (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 162 bits (409), Expect = 5e-37, Method: Compositional matrix adjust.
Identities = 110/327 (33%), Positives = 184/327 (56%), Gaps = 31/327 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT AE V L+ KI+ GL D KL +E A
Sbjct: 141 LTGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGLDAAD-KLEKQE-----------AGE 188
Query: 248 LRISRPELQSILM--ECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
+ ++R E++ ++ + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R
Sbjct: 189 IELTRAEMRRLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIR 248
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++
Sbjct: 249 AVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDL 308
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G P+ + I ++MS +VR ++ + +E SL GE S + D +E+
Sbjct: 309 GRDPTPEEIGAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IED 359
Query: 424 N----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
P L++++ + ++ L ERER++I L +GL D T E++ + G++R
Sbjct: 360 AQAVVPADAASFSMLQEQLTQ-VLDGLAERERKVIELRFGLEDGHPRTLEEVGREFGVTR 418
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAML 505
ER+RQ+ L KL+H +R K++ L
Sbjct: 419 ERIRQIESKTLAKLRHPSRSSKLKDYL 445
>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 = 162 bits (409), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 106/329 (32%), Positives = 182/329 (55%), Gaps = 23/329 (6%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
SM+ + ++ Y+K + LL+ E + L++ + G + L+E G E
Sbjct: 135 SMVDSFGTDDPVRMYLKEIGKVNLLSSDEEIELAQAMGAGAEAKEQLAELQES-GEEIPA 193
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
E LA EL + A+++L +N+RLV+SIA+RY G DL+Q G +G
Sbjct: 194 EVLA--------ELNKAIKRGERAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLG 245
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRL 360
L++ +EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +IR ++ L
Sbjct: 246 LIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLL 305
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD-- 418
+E G PS + IAE ++M ++VR ++ + +E SL GE S++ D
Sbjct: 306 QELGHDPSPEEIAEEMSMPVERVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFI 357
Query: 419 -NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 476
+ + P LK+++ + ++ TL RE ++++L +G+ D T E++ K +
Sbjct: 358 PDEDASEPAEAASFTLLKEQLVE-VLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNV 416
Query: 477 SRERVRQVGLVALEKLKHAARKKKMEAML 505
+RER+RQ+ AL KL+H +R KK++ L
Sbjct: 417 TRERIRQIEAKALRKLRHPSRSKKLKDFL 445
>gi|260436019|ref|ZP_05789989.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8109]
gi|260413893|gb|EEX07189.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8109]
Length = 335
Score = 162 bits (409), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 98/305 (32%), Positives = 179/305 (58%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + L ++++ + L+ + L+ + G +PS + LA + +S
Sbjct: 28 VRSYLRDIGRVPLLTHEQEITLGRQVQELMDLESLEAELESKAGEKPSRDVLAKASGLSS 87
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 88 MQLKRKLQHGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 147
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 148 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTE 207
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE++ + + V++ + SL+ + +G E D + P V++
Sbjct: 208 LAEFVELPEDDVKDLMCRARQPVSLEMKVG---DGDDTELLELLSGDG---DLPSDQVEE 261
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GLV 487
LK ++ L + L + +++R+ YG+D E ++ I + +G+SR+RVR + GL
Sbjct: 262 DCLKGDLRSL-LGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLA 320
Query: 488 ALEKL 492
L ++
Sbjct: 321 GLRRV 325
>gi|119513754|ref|ZP_01632741.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414]
gi|119461595|gb|EAW42645.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414]
Length = 327
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 94/303 (31%), Positives = 174/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT E + K+++ ++L D K L + L +PS+ + AA + +
Sbjct: 20 VRTYLREIGRVPLLTRDEEIIFGKQVQQMMTLLDAKQALAKELDHDPSLPEWAAQVNLPE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E+ I+ + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 KEVTQIVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +P+
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKFGRSPTPTE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L + ++R + SLD + G +T + ++ + ++ +
Sbjct: 200 IAHELELEPMQIREYLNMARQPVSLDVKV-----GDNQDTELQEMLEDEGPSPEYYTTQE 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+ L+ ++N L + L ++R+++ L +GL D ++ + +R+ LSRERVRQ+ AL
Sbjct: 255 F-LRQDLNNL-LAELTPQQRQVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALA 312
Query: 491 KLK 493
L+
Sbjct: 313 HLR 315
>gi|186683480|ref|YP_001866676.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC
73102]
gi|186465932|gb|ACC81733.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 332
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 173/305 (56%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLTH + + +K+++ ++L K +L +L +P+ ++ ++ I
Sbjct: 25 VRAYLREIGRIPLLTHEQEINFAKQVQKMMALLATKEKLAIQLKRQPTQKEWIENINIGE 84
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L L + A++K++ +N+RLV+SIA++Y D DL+Q G +GL RG+EKFD +
Sbjct: 85 KSLLQQLHQGQKAKQKMIQANLRLVVSIAKKYQRHNLDFLDLIQEGSLGLERGVEKFDPT 144
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG+K STY YWWIRQ ++RA+ E RT+RLP H+ E+L I+ + L +K G TP+
Sbjct: 145 KGYKFSTYGYWWIRQAITRAIAEQGRTIRLPIHITEKLNKIKRIQRELTQKLGRTPTAVD 204
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IAE L++ K++R+ L R+ SL G + D +N +P
Sbjct: 205 IAEELSLDPKQIRD-------YLLLARQPV-SLELRVGSDKDIELQDMLEDNGLSPELYA 256
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
D L+ + L + L ++R+I+ +GL D L+ +I +R+G+SRERVRQ+ A
Sbjct: 257 DHKFLQQNIQNL-LSKLNPQQRQILTFRFGLTDGNELSLAEIGQRMGISRERVRQIEQQA 315
Query: 489 LEKLK 493
L L+
Sbjct: 316 LGSLR 320
>gi|411007263|ref|ZP_11383592.1| RNA polymerase principal sigma factor [Streptomyces globisporus
C-1027]
Length = 363
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + ERL P ++ A
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------ERLAGTPDLDSRLAV----- 114
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 115 -DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 173
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ +
Sbjct: 174 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAED 233
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L+++ ++V +V L +E SL+ GE D + + V+
Sbjct: 234 IAVELDLTPERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVES 285
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 286 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKT 345
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 346 LSRLRDHAFADQLRGYL 362
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 220 ARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWW 279
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P + + + ++ KV
Sbjct: 280 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLGRDPMPEEVGAEMELTADKV 339
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKLI 442
R + + SL+ + G ++H +I DN E +P D LKD++ + +
Sbjct: 340 REIQKIAQEPVSLE-----TPIGEEDDSHLGDFIEDNEGE-SPIESTSDQMLKDQLEE-V 392
Query: 443 IVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ TL ERE ++RL +GL D + T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 393 LGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQL 452
Query: 502 EAML 505
+ +
Sbjct: 453 KDFM 456
>gi|113474981|ref|YP_721042.1| RNA polymerase subunit sigma 28 [Trichodesmium erythraeum IMS101]
gi|110166029|gb|ABG50569.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101]
Length = 496
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 102/318 (32%), Positives = 173/318 (54%), Gaps = 22/318 (6%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
++ ++ Y K V S L E + L+ +I L+L+ +L+E+L P+ + A
Sbjct: 184 FTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEWATE 243
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
++S+ EL L + A+ ++V +N+RLV S+A+RY N G D DL+Q G+IGLLR E
Sbjct: 244 AKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATE 303
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVTP 367
KFD +KG+K STY WWIRQ ++RA+ + SR +RLP +L+E + I+ ++ +
Sbjct: 304 KFDHTKGYKFSTYGIWWIRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIECSPL 363
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE-------AFPSLNGLPGETHHSYIADNR 420
+ + +A + M+ +K++ E + SLD + + GET Y+ +N
Sbjct: 364 TAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGENIIYKEMIKFNGETPTKYVFEN- 422
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRE 479
L+++V ++ TL ERER ++++ +GLD + T ++I L+RE
Sbjct: 423 ------------CLQEDVES-VLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRE 469
Query: 480 RVRQVGLVALEKLKHAAR 497
R+RQ+ AL KL+ R
Sbjct: 470 RIRQIEAKALRKLEDPKR 487
>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 = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 123 VDDRVSEEELLKDDLENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 177
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 178 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 229
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 230 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 289
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 290 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 341
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 342 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAK 400
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 401 ALRKLRHPSRSKKLKDFL 418
>gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces
roseosporus NRRL 11379]
Length = 363
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + ERL P ++ A
Sbjct: 67 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------ERLTGTPDLDSRLAG----- 114
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 115 -DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 173
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+ +
Sbjct: 174 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAED 233
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L+++ ++V +V L +E SL+ GE D + + V+
Sbjct: 234 IAVELDLTPERV-------TEVLRLAQEPV-SLHAPVGEEDDVSFGDLIEDGDAASPVES 285
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 286 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKT 345
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 346 LSRLRDHAFADQLRGYL 362
>gi|409358553|ref|ZP_11236916.1| RNA polymerase sigma factor SigB [Dietzia alimentaria 72]
Length = 322
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 108/316 (34%), Positives = 169/316 (53%), Gaps = 27/316 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL + V LSK+I+ GL H L K+R+G + + +L
Sbjct: 29 YLNGIGKTALLKAEDEVELSKRIEAGL-YAQHILATKKRIGP------------VRKSDL 75
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ E AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 76 KAVVAEGEAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 135
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K L ++ G ++D +AE
Sbjct: 136 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGRESTLDELAE 195
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG---ETHHSYIADNRVENNPWHGVDD 431
+ K+ + SLD G E + A+N V +N H
Sbjct: 196 ESGIPAHKIEELLDHSRDPVSLDMPVGADEEAPLGDFIEDAEATSAENTVLSNVMHS--- 252
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+V + ++ TL ERE+++I L +GL D + T + I KR GLSRERVRQ+ +
Sbjct: 253 -----DV-RAVLATLEEREQQVIMLRFGLNDGQPRTLDQIGKRFGLSRERVRQIEREVMA 306
Query: 491 KLKHAARKKKMEAMLV 506
KL+ R K+ + +
Sbjct: 307 KLREGRRADKLRSYAI 322
>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 = 6e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 143 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 202
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 262
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 263 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 314
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 315 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 373
Query: 500 KM 501
+
Sbjct: 374 PL 375
>gi|318040801|ref|ZP_07972757.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CB0101]
Length = 381
Score = 161 bits (408), Expect = 6e-37, Method: Compositional matrix adjust.
Identities = 112/355 (31%), Positives = 183/355 (51%), Gaps = 59/355 (16%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTG--------------------LSLDDHKLRLKERL 235
Y++ + +LL+H E + L+++++ + L+D + RL +L
Sbjct: 25 YLQDIGRVDLLSHEEELTLARQVQRRERLLRERRRLAATHPALQELIDLEDDQQRLASQL 84
Query: 236 GCEPSMEQLAASLR----------------------ISRPELQSILMECSLAREKLVMSN 273
G P+++QLA R +S EL+ L AR++++ +N
Sbjct: 85 GHWPAVQQLAEQQRCTVSELREQIRQKQQAWAEHSNLSVAELKQALHHGRRARDRMIQAN 144
Query: 274 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
+RLV+++A++Y G ++ DLVQ G +GL R +EK+D ++GF+ STY YWWIRQG++RA+
Sbjct: 145 LRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWWIRQGITRAI 204
Query: 334 VENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 392
SRT+RLP H+ E+L I+ A+ ++ E G SV +A L +S++ VR + +
Sbjct: 205 ATQSRTIRLPVHVTEKLNRIKKAQRQIATEHGRLASVSDLARELGLSEEVVRLTLMRVPR 264
Query: 393 VFSLD----REAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 448
SLD RE L L ++H P + +L D++ L + L
Sbjct: 265 SVSLDTRVGREQDTQLGDLLEDSH----------ATPEQELTRESLHDDLESL-LEELTA 313
Query: 449 REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
RE +IRL YGL D T I + + LSRERVRQ+ AL KL+ R+ +++
Sbjct: 314 REAAVIRLRYGLEDDTPQTLSQIGEDLHLSRERVRQIESRALLKLRQPQRRCRVQ 368
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 180/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT AE V L+++++ GL + E+L P ++ A
Sbjct: 133 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLSNTPDLDSELAL----- 180
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 181 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 239
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 240 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGHEPTPEE 299
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 300 VAAHLDLLPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 351
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 352 AAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKT 411
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 412 LNKLRDHAFADQLRGYL 428
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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 = 7e-37, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 149/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 80 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 139
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 140 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 199
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 200 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 251
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 252 -VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 310
Query: 500 KM 501
+
Sbjct: 311 PL 312
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 110/327 (33%), Positives = 184/327 (56%), Gaps = 31/327 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT AE V L+ KI+ GL D KL +E A
Sbjct: 138 LTGDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGLDAAD-KLEKQE-----------AGE 185
Query: 248 LRISRPELQSILM--ECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
+ ++R E++ ++ + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R
Sbjct: 186 IELTRAEMRRLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIR 245
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++
Sbjct: 246 AVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDL 305
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G P+ + I ++MS +VR ++ + +E SL GE S + D +E+
Sbjct: 306 GRDPTPEEIGAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IED 356
Query: 424 N----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
P L++++ + ++ L ERER++I L +GL D T E++ + G++R
Sbjct: 357 AQAVVPADAASFSMLQEQLTQ-VLDGLAERERKVIELRFGLVDGHPRTLEEVGREFGVTR 415
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAML 505
ER+RQ+ L KL+H +R K++ L
Sbjct: 416 ERIRQIESKTLAKLRHPSRSSKLKDYL 442
>gi|81299483|ref|YP_399691.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942]
gi|123557285|sp|Q31QG5.1|RPOD3_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD3
gi|81168364|gb|ABB56704.1| group2 RNA polymerase sigma factor SigD [Synechococcus elongatus
PCC 7942]
Length = 320
Score = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 179/309 (57%), Gaps = 16/309 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 131
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ + +L ++ G T ++
Sbjct: 132 TKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTATLP 191
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWH 427
+A L+++ +VR+ E SLD G+ + + D +E + P
Sbjct: 192 ELAAALDLTPAQVRDYLEKARHPLSLDLRV--------GDNQDTELGDL-LETDCTTPEE 242
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+++ ++++L + L E++R++I L YGL D + +T I R+ +SRERVRQ+
Sbjct: 243 FTLQASMRRDIDRL-LDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLER 301
Query: 487 VALEKLKHA 495
AL L+ A
Sbjct: 302 EALHTLRQA 310
>gi|395772635|ref|ZP_10453150.1| RNA polymerase sigma factor [Streptomyces acidiscabies 84-104]
Length = 362
Score = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 107/318 (33%), Positives = 181/318 (56%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT E V L+++++ GL + E+L P ++ QLA
Sbjct: 66 FRQYLREIGRIPLLTAVEEVELARRVEAGLFAE-------EKLLNTPDLDSQLAL----- 113
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 114 --DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 171
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 172 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 231
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A L+++ +V G+V L +E SL+ GE + D + + V+
Sbjct: 232 EVAAQLDLAPARV-------GEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 283
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 284 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 343
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 344 TLNKLRDHAFADQLRGYL 361
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 121 VDDRVSEEELLKDDLENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 175
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 176 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 227
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 228 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 287
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 288 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 339
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 340 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAK 398
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 399 ALRKLRHPSRSKKLKDFL 416
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 97/280 (34%), Positives = 162/280 (57%), Gaps = 14/280 (5%)
Query: 222 LSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIA 281
L L + LKE +G P+ + + I +Q E + ++K+V SN+RLV+SIA
Sbjct: 302 LKLQEEIEELKEMIGTVPT--EFDHVINI----IQEGRKEVNETKQKIVQSNLRLVVSIA 355
Query: 282 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 341
++Y N G DL+Q G IGL++ ++KFD KG+K STY WWIRQ ++RA+ + +RT+R
Sbjct: 356 KKYTNRGLQFLDLIQEGNIGLMKAVDKFDYKKGYKFSTYATWWIRQAITRAIADQARTIR 415
Query: 342 LPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREA 400
+P H+ E + L+R A+ ++E G P+ + IA+ + M +KVR + SL+
Sbjct: 416 IPVHMIETINKLVRVARSMVQELGREPTPEEIAKKVGMPPEKVRKILRTSQEPISLE--- 472
Query: 401 FPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL 460
+ G E+H +++ +P V AL+ ++ + ++ TL ERE +++R +GL
Sbjct: 473 --TPIGDDDESHLGDFIEDKTVMSPEQHVLRQALRQQLEE-VLSTLSEREEQVLRYRFGL 529
Query: 461 DKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
+ + T E + K+ G++RER+RQ+ AL KL+H R K
Sbjct: 530 EDDTEYTLEQVGKKFGVTRERIRQIEAKALRKLRHPHRAK 569
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 121 VDDRVSEEELLKDDLENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 175
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 176 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 227
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 228 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 287
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 288 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 339
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 340 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAK 398
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 399 ALRKLRHPSRSKKLKDFL 416
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 180/322 (55%), Gaps = 25/322 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + ++ Y+K + LLT E + L+ K++ G++ D E E +QL +
Sbjct: 133 IDDPVRMYLKEIGKVPLLTAEEEIDLAMKMEAGINADKALEEDTENQLSEEEKKQLTITS 192
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
R E A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EK
Sbjct: 193 R-----------EGENAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEK 241
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P
Sbjct: 242 FDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREP 301
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--- 424
+ IA+ + M ++VR ++ + +E SL GE S++ D ++N
Sbjct: 302 LPEEIAKEMEMPVERVR-------EILKISQEPV-SLETPIGEEQDSHLGDFIQDDNVPV 353
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQ 483
P LK+++ + ++ TL ERE++++RL +GLD T E++ K ++RER+RQ
Sbjct: 354 PADAAAFTLLKEQLVE-VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQ 412
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ AL KL+H +R +K++ L
Sbjct: 413 IEAKALRKLRHPSRSRKLKDYL 434
>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 = 161 bits (408), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 177/304 (58%), Gaps = 23/304 (7%)
Query: 214 LSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSIL-------MECSLAR 266
+S+K K + +++ ER+ E S +AA+ ++ PE + I+ E +A+
Sbjct: 383 MSRKDKKWAAFAENEADSVERIRSEIS--DIAAATGMALPEFRRIVNMVQKGEREARIAK 440
Query: 267 EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIR 326
+++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIR
Sbjct: 441 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 500
Query: 327 QGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 385
Q ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M +KVR
Sbjct: 501 QAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR- 559
Query: 386 ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKDEVNKLI 442
KV + +E SL G+ S++ D + N VD LK+ V + +
Sbjct: 560 ------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR-V 611
Query: 443 IVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +KM
Sbjct: 612 LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKM 671
Query: 502 EAML 505
+ L
Sbjct: 672 RSFL 675
>gi|168000881|ref|XP_001753144.1| predicted protein [Physcomitrella patens subsp. patens]
gi|162695843|gb|EDQ82185.1| predicted protein [Physcomitrella patens subsp. patens]
Length = 581
Score = 161 bits (407), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 108/336 (32%), Positives = 187/336 (55%), Gaps = 31/336 (9%)
Query: 188 LIQNRLK----GYVKGVVSEELLTHAEVVRLSKKIKTG---------LSLDDHKLRLKER 234
LI++RL Y++ V + +LLT E V LS+KI+ L L+ + L+
Sbjct: 251 LIKHRLSDPICSYLRDVKNSKLLTAFEEVALSRKIQVTTLFRFRQYTLKLEKVRAELQRD 310
Query: 235 LGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADL 294
+G EP+ + + ++ +++ + + E A++KLV SN+RLV+SI + Y G + DL
Sbjct: 311 MGREPTRSEWSLAVGMNQTLFELRIKEGQCAKDKLVNSNLRLVVSIVKNYQGRGMTLPDL 370
Query: 295 VQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIR 354
+Q G +GL+RG EKFD GFK STY WWIRQ V+R++ + SR +RLP H++E + I
Sbjct: 371 IQRGSLGLIRGAEKFDPEMGFKFSTYATWWIRQAVTRSITDQSRIIRLPVHIYEVISRIN 430
Query: 355 NAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETH 412
+++ + E++G + +A + +S +K+ F L P S++ L G
Sbjct: 431 KSRMMIAEDQGRQARDEEVATAVGISVEKLD---------FILKSARLPASMDQLIGRDK 481
Query: 413 HSYIADNRVENNPWHGVDDW----ALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTW 467
+ + V + ++ DD+ LK +++ ++ TL ERE++RL +GLD + +T
Sbjct: 482 DLPLWE-MVADKGFNSADDFLTNEVLKQDIDG-VLQTLSPTEREVLRLRFGLDDAQSMTL 539
Query: 468 EDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
+DI ++RER+RQ+ + AL KL+H R+ ++
Sbjct: 540 KDIGIFFKVTRERIRQIEVRALRKLRHPTRRNILQG 575
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 108/314 (34%), Positives = 175/314 (55%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + R+++ L E S + +
Sbjct: 69 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERIEDELDREISDAEWGKEVD 128
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 129 MELRPFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 188
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E G P+
Sbjct: 189 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPT 248
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN--- 424
+ IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 249 EEEIAERMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGET 298
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 299 PEDQVSKSLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 357
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 358 IEAKALRKLRHPNR 371
>gi|428301525|ref|YP_007139831.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428238069|gb|AFZ03859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 387
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 178/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + LKE+ G +PS ++AA ++ +
Sbjct: 79 AFFKEMARYPLLKADEEVELARRVRFLEEWREAQAALKEKSGNQPSKAEVAAEFSLTERQ 138
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 139 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKG 198
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L+++ G PS +A
Sbjct: 199 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQQLGRNPSEIELA 258
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L + ++R + + SL+ G +T + ++ +P +++
Sbjct: 259 ESLEIPPSQLRQLQQLRRQSLSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNESM 313
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 314 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 373
Query: 493 KHAARKKKMEAMLV 506
+ K+++ LV
Sbjct: 374 RRPHIAKRLKGWLV 387
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 140 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +AE L MS+ KV
Sbjct: 200 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELAEALEMSEDKV 259
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 260 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVTPEGNVESVMLREHIDA 311
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 312 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 370
Query: 500 KMEAML 505
++ L
Sbjct: 371 RIRDFL 376
>gi|158336372|ref|YP_001517546.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158306613|gb|ABW28230.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 174/304 (57%), Gaps = 17/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL H + V K+++ +L + K L++ L EP+ ++ A ++S +L
Sbjct: 14 YLREISRFPLLNHEQEVIFGKQVQRLTALQEMKQELQDHLDREPTQKEWAEKAQVSVAQL 73
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q L A K+V SN+RLV+SIA++Y+ + DL+Q G IGL RG+EKFD KG+
Sbjct: 74 QKELKLGHKANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGY 133
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQ ++RA+ E RT+RLP H++E+L +R + +L +K P+V +A
Sbjct: 134 RFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPTVQELAV 193
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA- 433
++++ KK+ + + SLD + G+ ++ + + + +P D +A
Sbjct: 194 EMDLAPKKIEDYLNYARRSISLDIQI--------GDQQNTELWE--LLEDPNESPDTYAT 243
Query: 434 ---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
L+ ++ KL + L ++RE+I L YGL D+ LT + +R+ +SRE VR+V A
Sbjct: 244 ASSLRSDLAKL-LQDLSPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
Query: 490 EKLK 493
+ L+
Sbjct: 303 KILR 306
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 121 VDDRVSEEELLKDDLENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 175
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 176 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 227
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 228 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 287
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 288 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 339
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 340 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAK 398
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 399 ALRKLRHPSRSKKLKDFL 416
>gi|428777601|ref|YP_007169388.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothece sp. PCC
7418]
gi|428691880|gb|AFZ45174.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothece sp. PCC
7418]
Length = 375
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 174/313 (55%), Gaps = 7/313 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L++++K + + L E+LG P+ +QLA +L + E
Sbjct: 68 AFFKEMARYPLLQPDEEVELAQQVKLAADFEHKRQELAEKLGSPPTKQQLAEALEMGVKE 127
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L L + +A+ +++ SN+RLV+SIA+RY N G DL+Q G IGL R EKFD +KG
Sbjct: 128 LDRKLYQGRVAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKG 187
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L +E P+ +A
Sbjct: 188 YKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRDLKQELQRNPTEAELA 247
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ L +SQ ++ + + SL+ + E + + R+ P +++
Sbjct: 248 QALEVSQSQLHQLLQLRRQSLSLNHRVGKGEDTELLELLEDH--EMRL---PEDQMNEAM 302
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKL 492
+ E++ ++ L ERE+++I + YGL+ + T E++ LSRERVRQ+ A+ KL
Sbjct: 303 MNQEISDVLSDVLTEREKDVISMRYGLNASQPYTLEEVGLMFNLSRERVRQIQSKAMRKL 362
Query: 493 KHAARKKKMEAML 505
+ ++++ L
Sbjct: 363 RRPQVARRLKGWL 375
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 106/289 (36%), Positives = 165/289 (57%), Gaps = 11/289 (3%)
Query: 212 VRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVM 271
++ +K + GL+ D L L+E + P + Q A + ++R E+ + LA+ KLV
Sbjct: 54 IKFTKAERLGLTDDSVGLFLRE-MARYPLLTQ-AQEVELAR-EIAKGGPQAELAKRKLVR 110
Query: 272 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 331
SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD +G+K STY YWWIRQG++R
Sbjct: 111 SNLRLVVSIAKKYLNRGVPFLDLIQEGAMGLMRAAEKFDYERGYKFSTYAYWWIRQGITR 170
Query: 332 ALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAI 390
A+ SRT+RLP H+ E+L +R A+ L +K G P+ IA L++ + K+ + +
Sbjct: 171 AIASQSRTVRLPVHMVEKLNQVRKARQMLSQKLGRKPTKQEIAAELDLDEDKLEHVLDVS 230
Query: 391 GKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERE 450
SL + G +T + ++ P +D L D +N ++ L +RE
Sbjct: 231 QGTLSLH-----AWVGREEDTELMQLIEDSDTIAPNECLDHKLLCDRLNS-VLEHLSDRE 284
Query: 451 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
R+II+L +GL D + T +I + LSRERVRQ+ A+ KL+H R+
Sbjct: 285 RDIIKLRFGLTDGQHYTLSEIGELYHLSRERVRQIQAKAMRKLRHPRRQ 333
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 97/265 (36%), Positives = 153/265 (57%), Gaps = 13/265 (4%)
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA L +S +LQ L+ AR++++ +N+RLV+++A++Y G ++ DLVQ G +GL R
Sbjct: 138 AACLDLSLSDLQQRLLRGRRARDRMIQANLRLVVAVAKKYQKRGVELLDLVQEGTLGLER 197
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 363
+EK+D ++GF+ STY YWWIRQGV+RA+ SRT+RLP H+ E+L I+ A+ + +
Sbjct: 198 AVEKYDPTRGFRFSTYAYWWIRQGVTRAIATQSRTIRLPVHVTEKLNRIKKAQRQFASDH 257
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRV 421
G T S+ +AE L S++ VR + + SL+ + G + + D
Sbjct: 258 GRTASLAELAEALQWSEEAVRLTLLRVPRSISLEAKV--------GRDQDTPLGDLLEAT 309
Query: 422 ENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
+ P + L +++ L+ L ERE E+IRL +GL D T I + + LSRER
Sbjct: 310 SDTPEQSLTRQQLHSDLDALLD-ELSEREAEVIRLRFGLADDTPRTLAQIGEGMQLSRER 368
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
VRQ+ AL KL+ AR+ ++ L
Sbjct: 369 VRQIETRALHKLRQPARRCRVHDYL 393
>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 = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 177/304 (58%), Gaps = 23/304 (7%)
Query: 214 LSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSIL-------MECSLAR 266
+S+K K + +++ ER+ E S +AA+ ++ PE + I+ E +A+
Sbjct: 381 MSRKDKKWAAFAENEADSVERIRSEVS--DIAAATGMALPEFRRIVNMVQKGEREARIAK 438
Query: 267 EKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIR 326
+++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIR
Sbjct: 439 KEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 498
Query: 327 QGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 385
Q ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M +KVR
Sbjct: 499 QAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR- 557
Query: 386 ATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKDEVNKLI 442
KV + +E SL G+ S++ D + N VD LK+ V + +
Sbjct: 558 ------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR-V 609
Query: 443 IVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +KM
Sbjct: 610 LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKM 669
Query: 502 EAML 505
+ L
Sbjct: 670 RSFL 673
>gi|297827203|ref|XP_002881484.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata]
gi|297327323|gb|EFH57743.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata]
Length = 546
Score = 161 bits (407), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 175/304 (57%), Gaps = 8/304 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 234 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 293
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P+L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 294 PDLKSEIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 353
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDR 371
G + +TY YWWIRQ + +++ +NSRT+RLP +++ LG + A K ++E PS ++
Sbjct: 354 SGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEQ 413
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A ++ +S +K+ S+ + + + T D+ +E P V
Sbjct: 414 LAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDT----TFQEITPDSGIE-TPTMSVGK 468
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALE 490
+++ V L+ V L +ER II+L +G+D + + +I + GLS+ERVRQ+ AL
Sbjct: 469 QMMRNHVRNLLNV-LSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALY 527
Query: 491 KLKH 494
+LK
Sbjct: 528 RLKQ 531
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 99/314 (31%), Positives = 177/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+ +++ + D + L+E+ G + ++A ++ +
Sbjct: 88 AFFKEMARYPLLKPDEEVELAHRVRFLEEVKDLQAALEEQFGHSATKGEIANKFDLNEKQ 147
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 148 LENRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 207
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 208 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEAEMA 267
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E+L M+ +++R + + SL+ G +T + ++ +P +++
Sbjct: 268 EFLEMTVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNQSPEAKMNENM 322
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 323 MRQEIWEVLGDVLTSREKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQIQSKAMRKL 382
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 383 RRPHIAKRLKGWLI 396
>gi|298490639|ref|YP_003720816.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae'
0708]
gi|298232557|gb|ADI63693.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae'
0708]
Length = 327
Score = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 96/303 (31%), Positives = 174/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L D K L ++L EPS+ + AA + S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEVLAKKLDHEPSLPEWAAHVNQSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 TEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +PS
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSPTE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ L + ++R + SLD G +T + ++ + ++ +
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVRV-----GDNQDTELQEMLEDEGPSPEYYTTQE 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+ L+ ++N L + L ++RE++ L +GL D ++ + +R+ LSRERVRQ+ AL
Sbjct: 255 F-LRQDLNNL-LAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALA 312
Query: 491 KLK 493
L+
Sbjct: 313 HLR 315
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 106/319 (33%), Positives = 178/319 (55%), Gaps = 25/319 (7%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+ + LLT E V L+K+++ GL E+L E L LR
Sbjct: 120 DSVRQYLSQIGRVRLLTAEEEVDLAKRVEAGLFA-------AEKLAAENG---LVGDLRR 169
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
EL + + +A+ +LV +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD
Sbjct: 170 ---ELVWVERDGEIAKSRLVEANLRLVVSIARRYVGRGMLFLDLIQEGNLGLIRAVEKFD 226
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+
Sbjct: 227 YTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTP 286
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ IA+ ++++ KVR + + SL+ GE S++ D +++ V
Sbjct: 287 EEIAKEMDLTPDKVREIQKVAQEPISLETPI--------GEEEDSHLGDFIEDSDAVVPV 338
Query: 430 D--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
D + L E ++ TL +RE+++I+L +GL D T E++ + G++RER+RQ+
Sbjct: 339 DAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIES 398
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+H +R +K+ L
Sbjct: 399 KTLSKLRHPSRSQKLRDYL 417
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 121 VDDRVSEEELLKDDIENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 175
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 176 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 227
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 228 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 287
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 288 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 339
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ + ++RER+RQ+
Sbjct: 340 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGREFNVTRERIRQIEAK 398
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 399 ALRKLRHPSRSKKLKDFL 416
>gi|124022691|ref|YP_001016998.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
gi|123962977|gb|ABM77733.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
Length = 320
Score = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 93/294 (31%), Positives = 173/294 (58%), Gaps = 9/294 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ +SL+ + L+ + G S ++LA + +S
Sbjct: 13 VRSYLRDIGRVPLLSHEQEITLGRQVQELMSLEQLESELEGKTGAPASRKELAKAAGLSE 72
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 73 LQLKKKLQSGRRAKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 132
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 133 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSE 192
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE++ + +++V++ + SL+ + G+ E P V+
Sbjct: 193 LAEFVELPEEEVKDLMCRARQPMSLEMKVG------DGDETELLELLAGEEELPSEKVEV 246
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV 484
+K ++ L + L E + ++R+ YG+D E + I+K +G+SR+R R++
Sbjct: 247 DCMKGDLRTL-LEKLPELQGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRL 299
>gi|352095348|ref|ZP_08956451.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351679359|gb|EHA62501.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 335
Score = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 182/306 (59%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP-SMEQLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + LK++ G + + E++A + +S
Sbjct: 27 VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKDQRGEDQVAREEVAKAAGVS 86
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 87 AAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 146
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TPSV
Sbjct: 147 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVT 206
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A ++ + +++V++ + SL+ + +G E D + P V+
Sbjct: 207 ELASFVELPEEEVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDGEL---PSEQVE 260
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---GL 486
LK ++ L + L E + +++R+ YG+D +E ++ I + IG+SR+RVR + GL
Sbjct: 261 GECLKGDLRDL-LSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRDRVRNLERDGL 319
Query: 487 VALEKL 492
L +L
Sbjct: 320 AGLRRL 325
>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 = 161 bits (407), Expect = 9e-37, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 183/320 (57%), Gaps = 31/320 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+L ++ QLA
Sbjct: 65 FRQYLREIGRIPLLTAAEEVELARRVEAGLFAE-------EKLAGATDLDSQLAV----- 112
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 113 --DLDKLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 170
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 171 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAE 230
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPW 426
+A +L ++ ++V +V L +E SL+ GE + D +E+ +P
Sbjct: 231 EVAAHLELTPERVL-------EVLRLAQEPV-SLHAPVGEEDDVALGD-LIEDGDAASPM 281
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
+ L++ + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 282 ESAAFFLLREHLEA-VLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIE 340
Query: 486 LVALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 341 SKTLNKLRDHAFADQLRGYL 360
>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 = 161 bits (407), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 113/302 (37%), Positives = 168/302 (55%), Gaps = 25/302 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + +E LLT + +L++ I G R ERL EPS+ + L
Sbjct: 18 YLNEIGAEPLLTFEQEQQLAQTIAQGR-------RAAERLTNEPSLHS------TEKKRL 64
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ + AR +L+ SN+RLV+SIA+RY G + DL+Q G IGL+R ++KFD+ +G
Sbjct: 65 AAQVAAGEQARAQLINSNLRLVVSIARRYQGHGLTLLDLIQEGSIGLMRAVDKFDAGRGL 124
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE---EKGVTPSVDRI 372
K STY +WIRQ + RA+ ++SRT+RLP HL ERL R A+LR E + P+++ +
Sbjct: 125 KFSTYATYWIRQSIGRAIADHSRTVRLPVHLGERLS--RLARLRQELAQQLDREPTLEEL 182
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
A +S ++V A +A SLD EA G S I + ++ P+ V +
Sbjct: 183 ANAAGLSVEQVERAEQAGLAPTSLD-EAHTEDGG----GALSEILTDPLQPTPFDEVSEG 237
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEK 491
L+ +V + + L RER I+RL YGLD E + T E I +R+ L+RERVRQ+ AL K
Sbjct: 238 MLQADV-QAALSQLSPRERNILRLRYGLDGEPMHTLEQIGQRLRLTRERVRQLEYEALRK 296
Query: 492 LK 493
L+
Sbjct: 297 LR 298
>gi|434395228|ref|YP_007130175.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
gi|428267069|gb|AFZ33015.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
Length = 328
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 96/305 (31%), Positives = 180/305 (59%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ +S+ D K L ++L EP++++ A+ +++S
Sbjct: 21 VRTYLREIGRVPLLTREQEIIYGKQVQQMMSVLDAKEALAKKLHREPTVQEWASHVKMSE 80
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 81 ADLHDTVRRGQRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFDPT 140
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L ++ G +PS
Sbjct: 141 RGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKIQRELAQRLGRSPSPAE 200
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IA L + ++R + +L R+ SL+ G+ + + D + +P H +
Sbjct: 201 IATELELEPSQIR-------EYLNLARQPV-SLDVRVGDNQDTELQDLLEDEGPSPEHYM 252
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+L+ +++ L + L ++RE++ L +GL D L+ + +R+ LSRERVRQ+ A
Sbjct: 253 TQESLRQDLDHL-MAELTPQQREVLNLRFGLEDGNELSLAKVGERLNLSRERVRQLEHQA 311
Query: 489 LEKLK 493
L L+
Sbjct: 312 LAHLR 316
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/302 (34%), Positives = 165/302 (54%), Gaps = 29/302 (9%)
Query: 218 IKTGLSLDD------------HKLRLKERLGCEPSMEQLA-ASLRISRPE--------LQ 256
I+ G+SLDD H L E +E+ A +R++R E LQ
Sbjct: 69 IREGVSLDDPVRMYLREIGQVHLLTAHEETMLAKQLERGERAMIRLARHEYLLEEKARLQ 128
Query: 257 SILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFK 316
++E AR+ L+ +N+RLV+SIA++Y G DL+Q G IGL+R EKFD KGFK
Sbjct: 129 QQVLESEAARQHLIQANLRLVVSIAKKYVGRGMSFLDLIQEGNIGLMRATEKFDYHKGFK 188
Query: 317 ISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEY 375
STY WWIRQ ++R++ ++SRT+RLP H+ E + ++ +L++ PS + I E
Sbjct: 189 FSTYATWWIRQAITRSISDHSRTIRLPVHVGETINRVKRTAHKLQQALEREPSAEEIGEA 248
Query: 376 LNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALK 435
L + KVR E + SL+ + + G+ +I D+R + P + L+
Sbjct: 249 LGLPADKVRRVLEVARQPVSLETPVGNEGDSVLGD----FIEDDR-SSEPLDHATEHLLR 303
Query: 436 DEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 494
+++++ ++ L ERER II L YGL D + T E++ + G++RER+RQ+ L KL+H
Sbjct: 304 EQLDE-VLCKLDERERRIIELRYGLVDGKYRTLEEVGREFGITRERIRQIEAKVLRKLRH 362
Query: 495 AA 496
A
Sbjct: 363 PA 364
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 154/248 (62%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY W
Sbjct: 136 VAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYHKGFKFSTYATW 195
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +++ +K
Sbjct: 196 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEK 255
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR+ + + +E SL GE S++ D +E++ DD+ LK+++
Sbjct: 256 VRD-------ILKIAQEPV-SLETPIGEEDDSHLGDF-IEDHDATSPDDYTSAELLKEQL 306
Query: 439 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
N+ ++ TL +RE ++RL +GL D + T E + ++ G++RER+RQ+ AL KL+H +R
Sbjct: 307 NE-VLDTLTDREENVLRLRFGLEDGQSKTLEQVGQQFGVTRERIRQIEAKALRKLRHPSR 365
Query: 498 KKKMEAML 505
K+++ L
Sbjct: 366 SKQLKDFL 373
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 179/318 (56%), Gaps = 35/318 (11%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ +K Y+K + LLT E V L+K+I+ GL + E+LA RI
Sbjct: 166 DPVKDYLKQIGKVSLLTAGEEVELAKRIEAGLFAE----------------EKLAKGGRI 209
Query: 251 S---RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
S R EL I+++ A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +E
Sbjct: 210 SPKMREELDWIVVDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 269
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G
Sbjct: 270 KFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 329
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ D +A+ L+M+ +KV +V RE SL+ GE S D +E++
Sbjct: 330 PTPDELAKELDMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEA 380
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P V L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+
Sbjct: 381 IVPADAVSFTLLQEQLHA-VLDTLSERESGVVSMRFGLTDGQPKTLDEIGKVYGVTRERI 439
Query: 482 RQVGLVALEKLKHAARKK 499
RQ+ + KL+H +R +
Sbjct: 440 RQIESKTMSKLRHPSRSQ 457
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILMECSLARE 267
RL LG PS+E+ AA+ I RP EL+ + + A+E
Sbjct: 120 RLTSELGHRPSLERWAATADIVLSDLRPTLANGKRRWAEIAKLTVEELEQVQSQGLQAKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLATELEMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDCV------TPEEMLMRESLQRDLHHL-LSDL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/318 (33%), Positives = 181/318 (56%), Gaps = 27/318 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LL+ AE V L+++++ GL + E+L P ++ QLA
Sbjct: 157 FRQYLREIGRIPLLSAAEEVELARRVEAGLFAE-------EKLSNTPDLDTQLAH----- 204
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+ +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 205 --DFDQLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 262
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 263 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPE 322
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A +L++ ++V +V L +E SL+ GE + D + + V+
Sbjct: 323 EVAHHLDLLPERV-------SEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVE 374
Query: 431 DWA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A L E + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 375 SAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESK 434
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 435 TLNKLRDHAFADQLRGYL 452
>gi|72383045|ref|YP_292400.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL2A]
gi|72002895|gb|AAZ58697.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. NATL2A]
Length = 335
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 95/307 (30%), Positives = 179/307 (58%), Gaps = 18/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ +SL++ + L+ LG +P + A IS
Sbjct: 28 VRSYLRDIGRVPLLSHEQEITLGRQVQDLVSLENLETELESDLGEKPDINFFADKAGISP 87
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 88 IQLKKKLKSGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 147
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR++RLP H+ E L ++ + L +E TP++
Sbjct: 148 RGYKFSTYAYWWIRQGITRAIAEKSRSIRLPIHITEMLNKLKKGQRELSQELSRTPTLKE 207
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 428
++EY+ + + V++ G+ SL+ + G+ + + D N + + P
Sbjct: 208 LSEYVELPETDVKDLMSRAGQPVSLETKI--------GDGEDTILLDLLSNEI-DMPSEQ 258
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV--- 484
++ +K ++ L + L E + ++R+ YG+D + ++ I + +G+SR+RVR +
Sbjct: 259 IESDCMKGDLETL-LEQLPELQNRVLRMRYGIDGDDPMSLTGIGRVLGISRDRVRNLERD 317
Query: 485 GLVALEK 491
GL L K
Sbjct: 318 GLRGLRK 324
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/311 (35%), Positives = 168/311 (54%), Gaps = 23/311 (7%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL+ E V L+K+I+ G+ H L E L E R EL
Sbjct: 54 YLNGIGRTALLSAQEEVDLAKRIEAGV-FAQHVLDTDEDLSRE------------RRLEL 100
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ + +A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 101 AAVVRDGQVAKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGF 160
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L +K G + + +A
Sbjct: 161 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQKLGREATNEELAA 220
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGE-THHSYIADNRVENNPWHGVDDWA 433
+++ KV N + SLD + G+ S AD EN+ G+
Sbjct: 221 ESGIAEHKVSNLLDHARDPVSLDMPVGSEEDAPLGDFIEDSEAAD--AENSVISGL---- 274
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKL 492
L D++ + ++ TL ERE+ +IRL YGLD + T + I + LSRERVRQ+ + KL
Sbjct: 275 LHDDLRR-VLATLDEREQNVIRLRYGLDDGQPRTLDQIGRHFNLSRERVRQIEREVMAKL 333
Query: 493 KHAARKKKMEA 503
+H R K+ A
Sbjct: 334 RHGERADKLRA 344
>gi|88809912|ref|ZP_01125417.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
gi|88786102|gb|EAR17264.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
Length = 355
Score = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/306 (32%), Positives = 178/306 (58%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + L+E+ G E + +LA + +S
Sbjct: 47 VRSYLRDIGRVPLLSHQQEITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLS 106
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 107 AVQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 166
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TPSV
Sbjct: 167 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVT 226
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A ++ + + +V+ + SL+ + +G E D + P V+
Sbjct: 227 ELASFVELPEDEVKELMCRARQPVSLEMKVG---DGDDTELLDLLAGDGEL---PSEQVE 280
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---GL 486
LK ++ L + L E + ++R+ YG+D +E ++ I + IG+SR+RVR + GL
Sbjct: 281 GECLKGDLRDL-LGQLPELQERVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDGL 339
Query: 487 VALEKL 492
L +L
Sbjct: 340 AGLRRL 345
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD KGFK STY WW
Sbjct: 171 AKKKLIEANLRLVVSIAKKYIGRGLSFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWW 230
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ +++ G P+ + IA+ L + +KV
Sbjct: 231 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLVQQLGREPTTEEIAQALGLPPEKV 290
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
+ + SL+ GE S + D ++ NP L++++ +
Sbjct: 291 EDIQRIAQEPVSLETPI--------GEEEDSQLGDFLEDKESPNPEEATAGQLLREQLEE 342
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
+ + L ERERE++RL +GL D T E++ KR ++RER+RQ+ AL KL+H +R K
Sbjct: 343 M-LDELTEREREVLRLRFGLEDGHAHTLEEVGKRFNVTRERIRQIEAKALRKLRHPSRSK 401
Query: 500 KM 501
++
Sbjct: 402 RL 403
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 154/249 (61%), Gaps = 14/249 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
LA++KLV +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY
Sbjct: 132 SELAKKKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYA 191
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G P + I++ ++MS
Sbjct: 192 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPRPEEISKVMDMSV 251
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDE 437
+K+R ++ + +E SL GE S++ D +++ P LK++
Sbjct: 252 EKIR-------EIQKISQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEAAAYSLLKEQ 303
Query: 438 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+ + ++ TL ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +
Sbjct: 304 LEE-VLSTLNEREQKVLKLRFGLEDGRTRTLEEVGKEFDVTRERIRQIEAKALRKLRHPS 362
Query: 497 RKKKMEAML 505
R KK++ L
Sbjct: 363 RSKKLKDYL 371
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/290 (34%), Positives = 171/290 (58%), Gaps = 27/290 (9%)
Query: 225 DDHKLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIA 281
D ++ LKE +G P + E++A +LRI + + A+++L +N+RLV+SIA
Sbjct: 102 DSVRMYLKE-IGRVPLLSADEEVALALRIQEGDTE--------AKQELAEANLRLVVSIA 152
Query: 282 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 341
+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R
Sbjct: 153 KRYVGRGMQFLDLIQEGNMGLMKTVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIR 212
Query: 342 LPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREA 400
+P H+ E + L+R + L++ G P+ + I +++ +KVR ++ + +E
Sbjct: 213 IPVHMVETINKLVRVQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILKIAQEP 265
Query: 401 FPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGEREREIIRLY 457
SL GE S++ D ++N D A LK+++++ ++ L +RE ++RL
Sbjct: 266 V-SLETPIGEEDDSHLGDFIEDDNATSPADHTAYALLKEQLDE-VLEQLTDREENVLRLR 323
Query: 458 YGLDK--ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+GLDK E T E + + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 324 FGLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 373
>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 = 105/305 (34%), Positives = 179/305 (58%), Gaps = 27/305 (8%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLA 265
E V + I G+S+DD ++ LKE +G P + E++A + R+ + + A
Sbjct: 88 EEVDIDLSIPEGISIDDPVRMYLKE-IGRVPLLSADEEIALAKRMEAGDEE--------A 138
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWI
Sbjct: 139 QKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWI 198
Query: 326 RQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
RQ ++RA+ + +RT+R+P H+ E + LIR ++ L++ G PS + IAE + +S ++VR
Sbjct: 199 RQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVR 258
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKL 441
++ + +E SL GE S++ D ++ P LK+++ +
Sbjct: 259 -------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE- 309
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL ERE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R +K
Sbjct: 310 VLDTLTEREERVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRK 369
Query: 501 MEAML 505
++ L
Sbjct: 370 LKDFL 374
>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 (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/295 (33%), Positives = 170/295 (57%), Gaps = 23/295 (7%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+S+DD ++ LKE ++ + E++A + R+ + LA+++L +N+
Sbjct: 87 VPKGVSVDDPVRMYLKEIGKISLLTADEEVAIAKRMENGD--------ELAKQELAEANL 138
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+
Sbjct: 139 RLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIA 198
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 393
+ +RT+R+P H+ E + L+R + +++ G PS + IA+ +N+ +KVR + +
Sbjct: 199 DQARTIRIPVHMVETINKLVRVQRQLVQDLGRDPSPEEIAQEMNLDVEKVREIQKIAQEP 258
Query: 394 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVNKLIIVTLGERER 451
SL+ GE S++ D ++ VD + L E ++ TL ERE+
Sbjct: 259 VSLETPI--------GEEEDSHLGDFIPDDEVLSPVDAATFTLLKEQLDTVLTTLTEREK 310
Query: 452 EIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+++ L +GL D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 311 KVLTLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 365
>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 (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/302 (33%), Positives = 172/302 (56%), Gaps = 35/302 (11%)
Query: 230 RLKERLGCEPSMEQLA-------ASLR---------------ISRPELQSILMECSLARE 267
RL +LG PS+E+ A A+L+ ++ EL+ + E A+E
Sbjct: 120 RLASQLGHRPSLERWATTAGVDVATLKPSLVKGKQRWAELAELTVKELEQVQAEGLQAKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +E+G T +++ IA+ L M +VR
Sbjct: 240 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEQGRTATIEDIAKELEMDAPQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIV 444
+ + SL+ + G+ + + D E +P + AL+ ++ +L +
Sbjct: 300 LMRVPRSVSLEIKV--------GKEKDTELGDLLETEETSPEDVLMREALQRDLQQL-LA 350
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 351 DLTSRERDVICMRFGLGDGHPYSLAEIGRALELSRERVRQIEAKALQKLRQPKRRNRVRD 410
Query: 504 ML 505
L
Sbjct: 411 YL 412
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 180/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ A+ V L+++++ GL + ERL P + A
Sbjct: 62 FRQYLREIGRIPLLSAADEVELARRVEAGLFAE-------ERLAGTPDPDSGLAV----- 109
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 110 -DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 168
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 169 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEE 228
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ ++V +V L +E SL+ GE D + + V+
Sbjct: 229 VAAQLDLTPERV-------SEVLRLAQEPV-SLHAPVGEEDDVAFGDLIEDGDAASPVET 280
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
A L E ++++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 281 AAFLLLREHLEVVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKT 340
Query: 489 LEKLKHAARKKKMEAML 505
L+KL+ A ++ L
Sbjct: 341 LDKLRGHAFADQLRGYL 357
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ + KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVYKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY W
Sbjct: 135 VAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATW 194
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ +NMS ++
Sbjct: 195 WIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPEEIAKNMNMSVER 254
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
VR ++ + +E SL GE S++ D + N P LK+++
Sbjct: 255 VR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDENVPVPADAAAFTMLKEQLE 306
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R
Sbjct: 307 E-VLGTLAEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRS 365
Query: 499 KKMEAML 505
+K++ L
Sbjct: 366 RKLKDYL 372
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 115/346 (33%), Positives = 184/346 (53%), Gaps = 59/346 (17%)
Query: 168 NKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH 227
NK Q + + + S I + +K Y+K + +LLTH + + L+K+I G
Sbjct: 122 NKMYNQSDDDDDMNQLGSNVKINDPVKMYLKEIGRVDLLTHEQEIELAKRILEG------ 175
Query: 228 KLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNM 287
A+++L +N+RLV+SIA+RY
Sbjct: 176 ----------------------------------DEQAKKELAAANLRLVVSIAKRYVGR 201
Query: 288 GADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLH 347
G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+
Sbjct: 202 GMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMV 261
Query: 348 ERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SL 404
E + L R + ++E G P+ + IAE ++ M+ KVR I K+ SL+ P SL
Sbjct: 262 ETINKLTRIQRQLVQELGREPTAEEIAEKMDGMTPAKVRE----IQKI-SLE----PVSL 312
Query: 405 NGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL 460
GE S++ D +E+ DD+A LKDE+N+ +++ L +RE +++RL +GL
Sbjct: 313 ETPIGEEDDSHLGD-FIEDEGAMSPDDYASNELLKDELNE-VLLELTDREEKVLRLRFGL 370
Query: 461 DK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
D T E++ K ++RER+RQ+ AL KLKH +R K+++ L
Sbjct: 371 DDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPSRSKRLKDFL 416
>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 = 160 bits (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 178/318 (55%), Gaps = 18/318 (5%)
Query: 196 YVKGVVSEELLTHAE-----VVRLSKKIKTGLSLDDHKLRLKERLG-CEPSMEQLAASLR 249
Y K V E+ + + V+R+ KK+ +L+ LKE L E M A +
Sbjct: 376 YFKHKVIEDFCSMIDEARDRVLRMQKKV----ALEPDNKELKEHLAELELRMWMTADEMG 431
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ EL+ L E A++++V +N+RLV+SIA++Y N G DL+Q G +GL++ +EKF
Sbjct: 432 DAYQELRKWLREARRAKDEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKF 491
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPS 368
+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R K ++E G P+
Sbjct: 492 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPT 551
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ IAE +++ ++VR+ + + SL + G +T +++ NP
Sbjct: 552 PEEIAEEIHLPVERVRSVLKMAQQPISLQ-----APVGDSDDTSFGDFIEDKAAENPMEE 606
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ K ++ TL +RERE+I +GL D T E++ ++ ++RER+RQ+
Sbjct: 607 ASFSFLKEKI-KDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAK 665
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H R K++ L
Sbjct: 666 ALRKLRHPTRISKIKGFL 683
>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 (406), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ AE V L+++++ GL + E+L C P ++ A
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL----- 147
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 148 -DLDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 206
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 207 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQE 266
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ A E +G+V L +E SL+ GE + D + + V+
Sbjct: 267 VAAHLDL-------APERVGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 318
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 319 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKT 378
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 379 LSKLRDHAYADQLRGYL 395
>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: 250 ISRPELQSILMEC-------SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
+S +LQ IL + +A+ ++ SN+RLV+SIA+RY N G DL+Q G IGL
Sbjct: 356 LSEEKLQEILEQIRQGKAKSEVAKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGL 415
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--L 360
++ ++KF+ KG+K STY WWIRQ +SRA+ + +RT+R+P H+ E + I N +R L
Sbjct: 416 MKAVDKFEYEKGYKFSTYATWWIRQAISRAIADQARTIRIPIHMIETINRI-NKIIRKHL 474
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+E G P +D IAE + +S KV+N + + SL+ +G G+
Sbjct: 475 QETGKEPDLDTIAEEVGLSVDKVKNVIKITKEPVSLETPVGDEDDGRFGDF--------- 525
Query: 421 VENNPWHGVDDWALKDEVNKLI---IVTLGEREREIIRLYYGL--DKECLTWEDISKRIG 475
+E+ D LKD++N I + L ERE+ +IR+ +GL D+ T E+I K +
Sbjct: 526 IEDKTTLSPTDVVLKDDLNNQIDDVLDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELS 585
Query: 476 LSRERVRQVGLVALEKLKH 494
++RERVRQ+ A++KLKH
Sbjct: 586 VTRERVRQIESSAIKKLKH 604
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A ++LV +N+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 171 ATQQLVEANLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 230
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G + + +AE L M +K+
Sbjct: 231 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDATPEVLAERLGMESEKI 290
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E SL+ + G+ ++ DN++ +P+ + LK++++ ++
Sbjct: 291 KAILEMNQDPISLETPVGSEEDSELGD----FVEDNKM-LSPYEQTNRNLLKEQLDD-VL 344
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+L ERE +++R YGLD C T E++ K ++RER+RQ+ + AL KL+H +R+KK+E
Sbjct: 345 QSLSEREEKVLRFRYGLDDGCPRTLEEVGKIFKVTRERIRQIEVKALRKLRHPSRRKKLE 404
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 93/274 (33%), Positives = 163/274 (59%), Gaps = 21/274 (7%)
Query: 244 LAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+AA+ ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 409 IAAATGMALPEFRRIVNMVQKAEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 468
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 469 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 528
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 529 SRQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 580
Query: 416 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 471
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 581 LGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 639
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 640 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 673
>gi|427706144|ref|YP_007048521.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427358649|gb|AFY41371.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 316
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 183/316 (57%), Gaps = 15/316 (4%)
Query: 182 SMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSM 241
S +SP+++ + Y++ + LLT + + ++++ ++++ K +L ++L EP +
Sbjct: 2 SSLSPDMV----RVYLREIGQFPLLTSDQEITYGRQVQQMIAIEGQKKQLSQQLHREPKL 57
Query: 242 EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
+LA + S E+ IL A++K+V +N+RLV+SIA++Y ++ DL+Q G IG
Sbjct: 58 AELADFVNKSETEVTQILQLGQRAKQKMVTANLRLVVSIAKKYQRRNLELLDLIQEGAIG 117
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL- 360
L RGIEKFD ++G+K+STY YWWI Q ++RA+ E SR +RLP H++E+L I+ + L
Sbjct: 118 LQRGIEKFDPNRGYKLSTYAYWWISQAITRAIAEKSRAVRLPIHVNEKLNQIKKVQRELF 177
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS-YIADN 419
+ G +V IA+ L++ ++R A SLD + G +T S ++D+
Sbjct: 178 QTLGRRATVTEIAQKLDIQASQIREYLSAASATISLDLKV-----GDNQDTELSELLSDD 232
Query: 420 RVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSR 478
+ +P + L+ +++ L + +L +RE++ L +G LD + + I +++ +SR
Sbjct: 233 GI--SPNEQITQEMLRQDLDNL-LASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSR 289
Query: 479 ERVRQVGLVALEKLKH 494
ERVRQ+ A+ L+
Sbjct: 290 ERVRQIQQQAMNILRR 305
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 344
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 500 KMEAML 505
++ L
Sbjct: 404 RIRDFL 409
>gi|218245044|ref|YP_002370415.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8801]
gi|257058068|ref|YP_003135956.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8802]
gi|218165522|gb|ACK64259.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8801]
gi|256588234|gb|ACU99120.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8802]
Length = 379
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 175/314 (55%), Gaps = 17/314 (5%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + ++ E +G P+ + + ++
Sbjct: 68 EDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIREKMTEHMGRFPTDLEWSQAIN 127
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ Q L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 128 MEWHAFQRRLYLGRKAKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 187
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+
Sbjct: 188 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPT 247
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE---NN 424
+ IA + M+ +K+R F P SL G+ S + D +E N
Sbjct: 248 EEEIATRMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEADGEN 297
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQ 483
P V L++++ ++ TL RER+++RL YGLD + T E+I + ++RER+RQ
Sbjct: 298 PEDEVSKNLLREDLEN-VLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQ 356
Query: 484 VGLVALEKLKHAAR 497
+ AL KL+H R
Sbjct: 357 IEAKALRKLRHPNR 370
>gi|443327806|ref|ZP_21056414.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442792535|gb|ELS02014.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 375
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 175/320 (54%), Gaps = 8/320 (2%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+++ + + K + LL E V L+ ++K + + + L E+L PS E+ A ++
Sbjct: 60 LEDNVGAFFKEMARYPLLNTDEEVVLANEVKLMVEAEAIRQDLIEQLDRNPSREEWAQAI 119
Query: 249 RISRP-ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+S EL+ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G IGL R E
Sbjct: 120 GLSSTRELEKFLYRGKVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATE 179
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 366
KFD +KG+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L++K
Sbjct: 180 KFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRNLKQKLQRN 239
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
PS +A+ L + ++R E + SL+ G +T + ++ P
Sbjct: 240 PSEQELADELKIPPAQLRQLLELRRQSLSLNHRV-----GKAEDTELVDLLEDDDLQLPE 294
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
+ + ++ E+ ++ L +RE+++I L YGL + T E++ +SRERVRQ+
Sbjct: 295 EKMSEAMMRQEITDVLDDVLTQREKDVISLRYGLFTSQPYTLEEVGGMFNISRERVRQIQ 354
Query: 486 LVALEKLKHAARKKKMEAML 505
A+ KL+ ++++ L
Sbjct: 355 SKAMRKLRRPQVARRLKGWL 374
>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 (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 91/244 (37%), Positives = 154/244 (63%), Gaps = 9/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++ + SN+RLV+SIA+ Y G DL+Q G +GLL+ +E+FD KG+K STY WW
Sbjct: 36 AKKRFIESNLRLVVSIAKGYVGKGISFPDLIQEGNLGLLKAVERFDYRKGYKFSTYATWW 95
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
I+Q ++RA+ + +RT+R+P H+ E + L++ K L++ G PS++ IAE +N+S+KK
Sbjct: 96 IKQTITRAIADQARTIRIPVHMVESVNKLLKIQKQFLQKLGREPSIEEIAEEMNISEKKA 155
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + + SL+ NG G+ IAD +P ++ LK++V++ ++
Sbjct: 156 KVLLEIVQGIVSLEEPVGEDENGKLGDI----IADKEA-VDPVEELESMLLKEQVDE-VL 209
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRI-GLSRERVRQVGLVALEKLKHAARKKKM 501
TL RE +++RL +GLD + T E++ K + G+SRERVRQ+ AL++L+H R +++
Sbjct: 210 STLAPREEKVLRLRFGLDDGKIRTLEEVGKELGGISRERVRQIETKALKRLRHPNRSRRL 269
Query: 502 EAML 505
+ L
Sbjct: 270 KEFL 273
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 109/318 (34%), Positives = 187/318 (58%), Gaps = 31/318 (9%)
Query: 197 VKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
V VSEE L ++ L + G+++DD ++ LKE +G P + E++ + RI +
Sbjct: 115 VDDRVSEEELLKDDLENLPE----GIAIDDPVRMYLKE-IGKIPLLTPEEEIELAKRIEQ 169
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+ + A+++L +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD
Sbjct: 170 GDEE--------AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYR 221
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+EKG P+ +
Sbjct: 222 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLLQEKGREPTPEE 281
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHG 428
IA+ +NM +KVR ++ + +E SL GE S++ D +++ P
Sbjct: 282 IAKEMNMPVEKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDDDALAPSEA 333
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
LK+++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 334 AAYSMLKEQLLE-VLDSLNEREKKVLKLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAK 392
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK++ L
Sbjct: 393 ALRKLRHPSRSKKLKDFL 410
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 344
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 500 KMEAML 505
++ L
Sbjct: 404 RIRDFL 409
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 177/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ +
Sbjct: 256 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR---------- 304
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + +A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD S
Sbjct: 305 -ELHYVVQDGQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 363
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 364 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDE 423
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 424 LAQELEMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 474
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+
Sbjct: 475 AVSFMMLQEQLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEA 533
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 534 KTMSKLRHPARSQSLRDYL 552
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++RL +GLD + T ED+ K ++RER+RQ+ AL K + +R K
Sbjct: 303 -ILDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKXRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|148238489|ref|YP_001223876.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH
7803]
gi|147847028|emb|CAK22579.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 355
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 100/309 (32%), Positives = 179/309 (57%), Gaps = 19/309 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE--PSMEQLAASLRI 250
++ Y++ + LL+H + + L ++++ + L+ + L+E+ G E P+ E LA + +
Sbjct: 47 VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAE-LAKAAGL 105
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S +L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 106 SAVQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 165
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L ++ G TPSV
Sbjct: 166 PTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSV 225
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--PWH 427
+A ++ + + +V+ + SL+ + G+ + + D + P
Sbjct: 226 TELAAFVELPEDEVKELMCRARQPVSLEMKV--------GDGDDTELLDLLAGDGELPSE 277
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV-- 484
V+ LK ++ L + L E + ++R+ YG+D E ++ I + IG+SR+RVR +
Sbjct: 278 QVEGECLKGDLRDL-LGQLPELQERVLRMRYGMDGEDPMSLTGIGRVIGISRDRVRNLER 336
Query: 485 -GLVALEKL 492
GL L +L
Sbjct: 337 DGLAGLRRL 345
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 114/325 (35%), Positives = 179/325 (55%), Gaps = 59/325 (18%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + +K Y+K + ELL+H E + L+K+I G D +
Sbjct: 147 INDPVKMYLKEIGRVELLSHDEEIDLAKRILEG----DEE-------------------- 182
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EK
Sbjct: 183 ----------------AKKKLAAANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEK 226
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + ++E G P
Sbjct: 227 FDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRVQRQLIQELGREP 286
Query: 368 SVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNP 425
+ IAE ++ M+ +KVR I K+ SL+ P SL GE S++ D +E+
Sbjct: 287 LAEEIAEKMDGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHLGD-FIEDEG 336
Query: 426 WHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRER 480
DD+A LKDE+N+ +++ L +RE +++RL +GLD T E++ K ++RER
Sbjct: 337 AMSPDDYAANELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVGKEFNVTRER 395
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
+RQ+ AL KLKH +R K+++ L
Sbjct: 396 IRQIEAKALRKLKHPSRSKRLKDFL 420
>gi|434402958|ref|YP_007145843.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428257213|gb|AFZ23163.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 327
Score = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 95/305 (31%), Positives = 175/305 (57%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L + K L ++L EPS+ + AA + S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVFGKQVQHMMTLLEAKEALAKKLRREPSLPEWAADVNQSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 TDVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +P+
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTPVE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IA+ L + ++R + SLD G+ + + D ++ +P +
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVRV--------GDNQDTELQDMLEDDGPSPEYYT 251
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ L+ ++N L + L ++RE++ L +GL D L+ + +R+ LSRERVRQ+ A
Sbjct: 252 NQEFLRQDLNNL-LAELTPQQREVLALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQA 310
Query: 489 LEKLK 493
L L+
Sbjct: 311 LAHLR 315
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 170 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 229
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 230 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 289
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 290 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVLTPEGNVESVMLREHIDT 341
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 342 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 400
Query: 500 KMEAML 505
++ L
Sbjct: 401 RIRDFL 406
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 177/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ +
Sbjct: 266 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR---------- 314
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + +A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD S
Sbjct: 315 -ELHYVVQDGQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 373
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 374 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDE 433
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 434 LAQELEMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 484
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+
Sbjct: 485 AVSFMMLQEQLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEA 543
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 544 KTMSKLRHPARSQSLRDYL 562
>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 (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 93/246 (37%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 196
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +NMS ++V
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 256
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 257 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 308
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 309 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 367
Query: 500 KMEAML 505
K++ L
Sbjct: 368 KLKDYL 373
>gi|443317305|ref|ZP_21046719.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783066|gb|ELR92992.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 392
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 97/301 (32%), Positives = 165/301 (54%), Gaps = 7/301 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E + L+++++ +++ K L + LG P + +A + +S +
Sbjct: 84 AFFKEMARYPLLKPDEEIELARQVRFLGEMEELKASLTDSLGRRPLLADIAHAFDLSEAQ 143
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
++ L A+ +++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 144 VRQNLQLGRAAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPDKG 203
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
+K STY YWWIRQG++R + ++RT+RLP H+ E+L ++ A L E P+ +A
Sbjct: 204 YKFSTYAYWWIRQGITRTIANDARTIRLPIHIVEKLNKLKKAHRDLRRELQRNPTEVELA 263
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ L+M+ ++R + + SL+ G +T + ++ +P + +
Sbjct: 264 QSLDMTPDQLRGLQQVRRRSLSLNHRV-----GKGEDTELMELLEDGNTQSPESQISESM 318
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ ++ L ERE++II L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 319 MRHEITSVLAEVLTEREKDIITLRYGLATGETHTLEEVGSMFNLSRERVRQIQTKAMRKL 378
Query: 493 K 493
+
Sbjct: 379 R 379
>gi|359458359|ref|ZP_09246922.1| RNA polymerase sigma-70 factor [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 173/304 (56%), Gaps = 17/304 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL H E + K+++ ++L D K L+ L EP++ + A +S +L
Sbjct: 14 YLREIGRFPLLNHEEEIIFGKQVQRFIALQDLKQDLQADLDREPTLTEWADKAELSISQL 73
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q L A K+V SN+RLV+SIA++Y+ + DL+Q G IGL RG+EKFD KG+
Sbjct: 74 QKELKLGHKANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGY 133
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQ ++RA+ E RT+RLP H++E+L +R + +L +K P++ +A
Sbjct: 134 RFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLSQKLHRDPTIQELAV 193
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA- 433
++++ KK+ + + SLD + G+ ++ + + + +P D +A
Sbjct: 194 EMDLTPKKIEDYLNYARRSISLDIQI--------GDQQNTELWE--LLEDPNESPDTYAT 243
Query: 434 ---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVAL 489
L+ ++ KL + L ++RE+I L YGL D+ LT + +R+ +SRE VR+V A
Sbjct: 244 ASSLRSDLAKL-LQDLSPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
Query: 490 EKLK 493
+ L+
Sbjct: 303 KILR 306
>gi|254526733|ref|ZP_05138785.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
gi|221538157|gb|EEE40610.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
Length = 333
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 94/307 (30%), Positives = 181/307 (58%), Gaps = 16/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L L E G +PS+++L+ L +S
Sbjct: 26 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERAELELIELAGDKPSIDELSTKLNLST 85
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 86 SIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 145
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP+V
Sbjct: 146 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 205
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 206 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 257
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L+ L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 258 EMDCMRGDLHSLL-HQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 316
Query: 486 LVALEKL 492
L L +L
Sbjct: 317 LRGLRRL 323
>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 = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 170/313 (54%), Gaps = 27/313 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT E V L+K+I+ G+ +H L +L E R +L
Sbjct: 31 YLNGIGRTALLTAQEEVDLAKRIEAGV-FANHVLETSGKLSPE------------RRSDL 77
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ + LA+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 78 KAVVRDGVLAKNHLMEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGF 137
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ I K L +K G + + +A
Sbjct: 138 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKIARIKRDLHQKLGREATDEELAN 197
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDD 431
++ +KV + + SLD + G+ +I D EN G
Sbjct: 198 EAGLTVEKVADLLDHSRDPVSLDMPVGAEEDAPLGD----FIEDAESADAENAVISGF-- 251
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
L+D++ + ++ TL ERE+ +IR+ YGLD + T + I K GLSRERVRQ+ +
Sbjct: 252 --LQDDLRR-VLSTLEEREQAVIRMRYGLDDGQPRTLDQIGKAFGLSRERVRQIEREVMS 308
Query: 491 KLKHAARKKKMEA 503
KL+ R K+ A
Sbjct: 309 KLRQGDRADKLRA 321
>gi|123969371|ref|YP_001010229.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. AS9601]
gi|123199481|gb|ABM71122.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. AS9601]
Length = 344
Score = 160 bits (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 93/307 (30%), Positives = 182/307 (59%), Gaps = 16/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L + E G +PS+++L+A L ++
Sbjct: 37 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERIELEIIELTGEKPSIDELSAKLNLTT 96
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 97 STIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP+V
Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 217 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 268
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L+ L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 269 EMDCMRGDLHSLL-HQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 327
Query: 486 LVALEKL 492
L L +L
Sbjct: 328 LRGLRRL 334
>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 (405), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 105/305 (34%), Positives = 179/305 (58%), Gaps = 27/305 (8%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLA 265
E V + I G+S+DD ++ LKE +G P + E++A + R+ + + A
Sbjct: 88 EEVDIDLSIPEGISIDDPVRMYLKE-IGRVPLLSADEEIALAKRMEAGDEE--------A 138
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWI
Sbjct: 139 QKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWI 198
Query: 326 RQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
RQ ++RA+ + +RT+R+P H+ E + LIR ++ L++ G PS + IAE + +S ++VR
Sbjct: 199 RQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVR 258
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKL 441
++ + +E SL GE S++ D ++ P LK+++ +
Sbjct: 259 -------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKEQLEE- 309
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL ERE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R +K
Sbjct: 310 VLDTLTEREERVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRK 369
Query: 501 MEAML 505
++ L
Sbjct: 370 LKDFL 374
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/327 (33%), Positives = 183/327 (55%), Gaps = 26/327 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I++ ++ Y+K + LL+ E + L+K ++ G KE++ S E+ A
Sbjct: 115 IEDPVRMYLKEIGKVPLLSAEEEIELAKNMEAGAVA-------KEKIAILKSREEKATEE 167
Query: 249 RISR-----PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
++ LQ L A+++L +N+RLV+SIA+RY G DL+Q G +GL+
Sbjct: 168 ELAEIKEEIKNLQKDLDAGDEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLI 227
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEE 362
+ +EKFD KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E
Sbjct: 228 KAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQE 287
Query: 363 KGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 422
G PS + IA +NM ++VR ++ + +E SL GE S++ D +
Sbjct: 288 LGREPSPEEIAAEMNMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQD 339
Query: 423 NN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
+N P LK+++ + ++ TL ERE++++ L +GL D T E++ K ++R
Sbjct: 340 DNVPVPADAAAFTLLKEQLEE-VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTR 398
Query: 479 ERVRQVGLVALEKLKHAARKKKMEAML 505
ER+RQ+ AL KL+H +R +K++ L
Sbjct: 399 ERIRQIEAKALRKLRHPSRSRKLKDYL 425
>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 (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 96/246 (39%), Positives = 148/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD KGFK+STY WW
Sbjct: 177 AKKKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDPEKGFKLSTYATWW 236
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A+ L+M+++KV
Sbjct: 237 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELAKALDMTEEKV 296
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D +NN P V+ L++ +
Sbjct: 297 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADNNVLTPEDNVESVMLREHIEA 348
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ + ++RER+RQ+ AL KL++ R K
Sbjct: 349 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRNPVRSK 407
Query: 500 KMEAML 505
++ L
Sbjct: 408 RIRDFL 413
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/310 (33%), Positives = 180/310 (58%), Gaps = 25/310 (8%)
Query: 204 ELLTHAEVVRLSKKIKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILM 260
E+ E V + I G+S+DD ++ LKE R+ + E++ + R+ + + +
Sbjct: 75 EIEAAPEEVDIDLSIPEGISIDDPVRMYLKEIGRVPLLTAEEEIQLAKRMEQGDEE---- 130
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY
Sbjct: 131 ----AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTY 186
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+EKG P+ + IA +++S
Sbjct: 187 ATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIAREMDIS 246
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKD 436
++VR ++ + +E SL GE S++ D + + P LK+
Sbjct: 247 VERVR-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPAEAASFMLLKE 298
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
++ + ++ TL RE +++RL +GLD T E++ + G++RER+RQ+ AL KL+H
Sbjct: 299 QLEE-VLETLTPREEKVLRLRFGLDDGRARTLEEVGQYFGVTRERIRQIEAKALRKLRHP 357
Query: 496 ARKKKMEAML 505
+R KK++ L
Sbjct: 358 SRSKKLKDFL 367
>gi|17231292|ref|NP_487840.1| RNA polymerase sigma factor [Nostoc sp. PCC 7120]
gi|8489801|gb|AAF75758.1|AF262217_2 group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120]
gi|17132934|dbj|BAB75499.1| group 2 sigma 70-type sigma factor E [Nostoc sp. PCC 7120]
Length = 327
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 96/306 (31%), Positives = 175/306 (57%), Gaps = 15/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ +SL D K L ++L EPS+ + A ++ S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVYGKQVQQMMSLIDAKEALAKKLDREPSLPEWADHVQKSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 TEVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L + G +PS
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP---WHG 428
IA+ L + ++R + SLD + G+ + + + ++ P ++
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVKV--------GDNQDTELQEMLEDDGPSPEYYT 251
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLV 487
++ L+ ++N L + L ++RE++ L +G LD L+ + +R+ LSRERVRQ+
Sbjct: 252 TQEF-LRQDLNTL-LAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQ 309
Query: 488 ALEKLK 493
AL L+
Sbjct: 310 ALAHLR 315
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+I TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VIDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 499 KKMEAML 505
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|428207075|ref|YP_007091428.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428008996|gb|AFY87559.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 330
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 98/306 (32%), Positives = 179/306 (58%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L D K L ++L EP+ME+ A + S
Sbjct: 23 VRTYLREIGRVPLLTREQEIVYGKQVQQMMALLDAKEALVKKLRREPTMEEWTAKVNTSE 82
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 83 AELNDLIRKGQRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFDPI 142
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L + G +P+
Sbjct: 143 RGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKVQRELAQTLGRSPNAVE 202
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IAE L + ++R + +L R+ SL+ G+ + + D ++ +P + +
Sbjct: 203 IAEALELEPAQIR-------EYLNLARQPV-SLDVRVGDNQDTELQDLLEDDGISPENYM 254
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+L+ +++ L + L ++RE++ L +GL D L+ + +R+ LSRERVRQ+ A
Sbjct: 255 TQESLRQDLDTL-LSELTPQQREVLNLRFGLQDGNELSLAKVGERLNLSRERVRQLEHQA 313
Query: 489 LEKLKH 494
L L+
Sbjct: 314 LAHLRR 319
>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 (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 95/282 (33%), Positives = 163/282 (57%), Gaps = 21/282 (7%)
Query: 229 LRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
LR E G S++Q+ + R + ++ +LV +N+RLV+SIA++Y N G
Sbjct: 368 LRKNEVKGDSKSLKQIVDCVDKGR-------RDADFSKRELVRANLRLVVSIAKKYTNRG 420
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E
Sbjct: 421 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIE 480
Query: 349 RLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL 407
+ LIR ++ ++E G PS + IAE + + +KVR +V + +E SL
Sbjct: 481 TINKLIRTSRYLVQEMGKEPSPEEIAEKMEIPIEKVR-------RVLKIAKEPI-SLETP 532
Query: 408 PGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKE 463
GE S++ D ++ + P D++L ++ K I+ TL RE +++R+ +G+ +K
Sbjct: 533 IGEEEDSHLGDFIEDKKFSIPSDAAIDFSLAEQTRK-ILATLTPREEKVLRMRFGIGEKS 591
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ K ++RER+RQ+ AL KL+H R KK++ +
Sbjct: 592 DHTLEEVGKDFTVTRERIRQIEAKALRKLRHPTRSKKLKTFI 633
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 164/293 (55%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRP----------------------ELQSILMECSLARE 267
RLK LG PS+E+ A + IS P EL+ + + A+
Sbjct: 115 RLKAELGHRPSLERWATTAGISLPDLKPTLANGKRRWAEIANLTVEELEQVQTQGLQAKS 174
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 175 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 234
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ + L+M+ +VR
Sbjct: 235 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLGIELDMTPAQVREV 294
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L +++ L+
Sbjct: 295 LLRVPRSVSLETKVGKDKDTELGELLETDTI------TPEEMLMRESLHKDLHSLLDDLT 348
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
G RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 349 G-RERDVILMRFGLSDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 400
>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 = 98/296 (33%), Positives = 174/296 (58%), Gaps = 31/296 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS ++ A + +IS EL++IL + A+E
Sbjct: 121 RLFISLGYRPSWDRWAKAAQISVGELKTILGQGKERWAQLADIELDQLETIEKVGIRAKE 180
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+++ +N+RLV+S+A++Y + G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 181 QMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 240
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SR +RLP H+ E+L I+ A+ +L +EKG +++ +++ L+MS +++R
Sbjct: 241 GITRAISTQSRIIRLPVHITEKLNKIKRAQRKLSQEKGRKATIEEMSKELDMSAEQIREV 300
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
I + SL+ + G +T + + + +P + +L+ ++ ++++ L
Sbjct: 301 LLRIPRSVSLEVKV-----GKEKDTELVDLLETECQ-SPEESLISESLRKDL-QVLLEDL 353
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
ERE+++I+L YG D C + DI + + LSRERVRQ+ AL+KL+ R+ ++
Sbjct: 354 TEREQDVIKLRYGFEDGTCYSLADIGRVLELSRERVRQIEAKALQKLRQPRRRNQI 409
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 262 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 321
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 322 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 381
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 382 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 435
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 436 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 495
Query: 503 AMLV 506
V
Sbjct: 496 DFKV 499
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 170/308 (55%), Gaps = 35/308 (11%)
Query: 224 LDDHKLRLKERLGCEPSME----------------------QLAASLRISRPELQSILME 261
L D + RL LG PS+E Q AA ++ EL+ E
Sbjct: 116 LVDTRDRLASLLGHRPSLERWAAEAGEQVSDLKPILAAGKRQWAALASLTVEELERTQAE 175
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R ++KFD +KG++ STY
Sbjct: 176 GIGAKEHMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTKGYRFSTYA 235
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQ 380
YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ +L +EKG T S++ +A+ L M+
Sbjct: 236 YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTASIEDVAKELEMTP 295
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEV 438
+VR + + SL+ + G+ + + D + +P + AL E+
Sbjct: 296 AQVREVLLRVPRSVSLETKV--------GKEKDTELGDLLETDDISPEEKLMQEALHREL 347
Query: 439 NKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
+ L + L RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R
Sbjct: 348 HHL-LADLTSRERDVIGMRFGLTDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKR 406
Query: 498 KKKMEAML 505
+ ++ L
Sbjct: 407 RNRVRDYL 414
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 163/270 (60%), Gaps = 22/270 (8%)
Query: 243 QLAASLR-ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIG 301
+L+ +LR I R E +S LA+ +LV +N+RLV+SIA++Y N G DL+Q G IG
Sbjct: 322 ELSDALRAIDRGEAKS-----KLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIG 376
Query: 302 LLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRL 360
L++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ +
Sbjct: 377 LMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLV 436
Query: 361 EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR 420
+E G PS + IAE +N+ KVR KV + +E SL GE S++ D
Sbjct: 437 QEIGREPSPEEIAERMNLPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF- 487
Query: 421 VEN----NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIG 475
+E+ +P V L ++ + ++ TL RE +++R+ +G+ +K T E++ +
Sbjct: 488 IEDKGVVSPLEAVIKANLSEQTAR-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFE 546
Query: 476 LSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RER+RQ+ AL KL+H +R KK+ + +
Sbjct: 547 VTRERIRQIEAKALRKLRHPSRAKKLRSFV 576
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 108/326 (33%), Positives = 180/326 (55%), Gaps = 26/326 (7%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + ++ Y+K + LL E V+L++ + G D K R+ E E E + +
Sbjct: 132 IDDPVRMYLKEIGKVNLLNPDEEVQLAQDMGAG---DAAKARMAEIEAAEKRGEPIVLT- 187
Query: 249 RISRPE----LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
PE L+ + A+++L +N+RLV+SIA+RY G DL+Q G +GL++
Sbjct: 188 ----PEEEKALKKDIRRGEAAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 243
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD +KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + +IR ++ L+E
Sbjct: 244 AVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQEL 303
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NR 420
G PS + IAE +NM KVR ++ + +E SL GE S++ D +
Sbjct: 304 GHDPSPEEIAEEMNMPVDKVR-------EILKIAQEPV-SLETPIGEEEDSHLGDFIPDE 355
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+ P LK+++ ++ TL RE ++++L +G+ D T E++ K ++RE
Sbjct: 356 DASEPSEAASFTLLKEQLVD-VLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRE 414
Query: 480 RVRQVGLVALEKLKHAARKKKMEAML 505
R+RQ+ AL KL+H +R KK++ L
Sbjct: 415 RIRQIEAKALRKLRHPSRSKKLKDFL 440
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 110/339 (32%), Positives = 185/339 (54%), Gaps = 35/339 (10%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LLT E + L++KI+ G+ + +L+E G S ++L + EL
Sbjct: 110 YLRDIGRHPLLTAEEEMELAEKIRLGVEAEK---KLQELFGGR-SEDELTDEELDQKDEL 165
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ + +A +L SN+RLV+S+A+RY G + DL+Q G +GLLR ++KFD + GF
Sbjct: 166 EMLVHQGRMAHSRLAQSNLRLVVSVAKRYIGRGLNFLDLIQEGNLGLLRAVDKFDHTLGF 225
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA- 373
K STY WWIRQ +SRA+ + +RT+R+P H+ E + + RL+++ G P+ + IA
Sbjct: 226 KFSTYATWWIRQAISRAIADQARTIRIPVHMVETINRQTRVQRRLQQELGREPTYEEIAI 285
Query: 374 --EYLNMS-------------------QKKVRNATEAIGKVFSLDREAFPSLNGLPGETH 412
++L+ Q++V A + ++ L +E SL G
Sbjct: 286 EMDFLSPEDAKRYKEAIAKGKRLDPDLQRQVERAAAKVRRIQRLSQEPL-SLETPVGSEE 344
Query: 413 HSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTW 467
+SY+ D +E++ G D A LK+++ + I+ L ERER+++ + +GL D T
Sbjct: 345 NSYLGDF-IEDDSLPGPADSASRRMLKEQMEE-ILDNLSERERKVLVMRFGLEDGVTRTL 402
Query: 468 EDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
ED+ K ++RERVRQ+ AL KL+H R +K+ L
Sbjct: 403 EDVGKEFNVTRERVRQIEAKALRKLRHPLRSRKLRDYLA 441
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 110/322 (34%), Positives = 180/322 (55%), Gaps = 21/322 (6%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + LLT +E V L+ KI+ G++ +L E G E +
Sbjct: 88 LTGDPVRMYLKEIGKVPLLTPSEEVDLAMKIEAGVAAT-AELEKAEEEGVELDRRERRRL 146
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
R+ + L A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +E
Sbjct: 147 TRVEQVGLD--------AKDQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 198
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G
Sbjct: 199 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRD 258
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
PS + I E + +S ++VR ++ L +E SL GE S + D +++
Sbjct: 259 PSPEEIGEKMGLSAERVR-------EIQKLSQEPV-SLETPIGEEEDSQLGDFIEDDSAI 310
Query: 427 HGVD--DWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
VD +A+ E ++ TLGERER ++ +GL D + T E++ + G++RER+RQ
Sbjct: 311 VPVDAASFAMMQEQLSKVLDTLGERERNVVIKRFGLEDGQPHTLEEVGREFGVTRERIRQ 370
Query: 484 VGLVALEKLKHAARKKKMEAML 505
+ L KL+H +R K++ L
Sbjct: 371 IESKTLAKLRHPSRSSKLKDYL 392
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 180/317 (56%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LLT E V L+++++ GL + E+L P ++ A
Sbjct: 97 FRQYLREIGRIPLLTAEEEVELARRVEAGLFAE-------EKLEHTPDLDTRLAG----- 144
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 145 -DLDRLVVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 203
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P
Sbjct: 204 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGYEPCAAD 263
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A+ L++++++V G+V L +E SL+ G+ + D + + V+
Sbjct: 264 VADQLDLTEERV-------GEVLRLAQEPV-SLHAPVGDEDDVALGDLIEDGDAASPVES 315
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER +++L YG LD T E+I + G++RER+RQ+
Sbjct: 316 AAFLLLREHLEAVLSTLGERERRVVQLRYGLLDGRPRTLEEIGRIFGVTRERIRQIESKT 375
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A +++ L
Sbjct: 376 LGKLRDHAFAEQLRGYL 392
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 138 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV ++E L MS+ KV
Sbjct: 198 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSEALEMSEDKV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ ++
Sbjct: 258 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVTPEGNVESVMLREHIDA 309
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 310 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 368
Query: 500 KMEAML 505
++ L
Sbjct: 369 RIRDFL 374
>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 (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 148/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + V NP L++++++
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE 302
Query: 441 LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL +RE ++ L +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K
Sbjct: 303 -ILDTLTDREENVLHLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSK 361
Query: 500 KM 501
+
Sbjct: 362 PL 363
>gi|428773077|ref|YP_007164865.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
stanieri PCC 7202]
gi|428687356|gb|AFZ47216.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
stanieri PCC 7202]
Length = 391
Score = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 110/324 (33%), Positives = 174/324 (53%), Gaps = 32/324 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
++ ++ Y++ + LL E + L+++I L L+ + E LG P+ E+ A +
Sbjct: 77 FTEDSIRVYLQEIGRIRLLRAEEEIELARQIADLLDLEYIRATQIEHLGRIPTDEEWAIA 136
Query: 248 LRISRPELQSILMECSL---AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
I P ++ + A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 137 CDI--PNMRQFNRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 194
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +K
Sbjct: 195 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKMLSQKM 254
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVE 422
G P+ + IAE + M+ +K+R F P SL G+ S + D
Sbjct: 255 GRKPTEEEIAEDMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGD---- 301
Query: 423 NNPWHGVDDWALKDEVNK--------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKR 473
+ D +DEV+K ++ +L RER+++RL YGLD + T E+I +
Sbjct: 302 ---FIEADGETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQI 358
Query: 474 IGLSRERVRQVGLVALEKLKHAAR 497
++RER+RQ+ AL KL+H R
Sbjct: 359 FNVTRERIRQIEAKALRKLRHPNR 382
>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 = 160 bits (404), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 107/340 (31%), Positives = 188/340 (55%), Gaps = 32/340 (9%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTG-LSLDDHKLRLKERLGCEPSMEQ---- 243
I + ++ Y+K + ELL+ E + +KKI+ G +S + ++R K E +E+
Sbjct: 124 INDPVRMYLKEIGRVELLSSQEEINFAKKIERGDISSEILEIRRKNEPLPEELLERIDLL 183
Query: 244 -------------LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
L +S E + ++ E A+++LV +N+RLV+SIA+R+ G
Sbjct: 184 IQDAGEANDGNEFLIGVTELSDEEARRVIQEGEYAKKRLVEANLRLVVSIAKRHVGRGML 243
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E +
Sbjct: 244 FLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 303
Query: 351 G-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
L+R + ++E G P + I+E + ++ +KVR ++ + +E SL G
Sbjct: 304 NKLVRIQRQLVQELGREPLPEEISEKMGIAPEKVR-------EILKISQEPV-SLESPVG 355
Query: 410 ETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECL 465
E S++ D + + P + LK E++ ++ TL +RE ++RL +GL D
Sbjct: 356 EEDDSHLGDFIPDADALSPSEFASNEMLKKELDD-VLETLTDREERVLRLRFGLEDGRTR 414
Query: 466 TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ K G++RER+RQ+ AL KL+H +R ++++ +
Sbjct: 415 TLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSRRLKDFM 454
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 344
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 500 KMEAML 505
++ L
Sbjct: 404 RIRDFL 409
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 193
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M +V
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVDRV 253
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 254 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 305
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 306 -VLSTLTEREQKVLRLRFGMSDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 364
Query: 500 KM 501
K+
Sbjct: 365 KL 366
>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 (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 102/325 (31%), Positives = 181/325 (55%), Gaps = 28/325 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ Y+ + E+ L KK K + D + +R+ E + +A+ ++
Sbjct: 365 LQAYIGNELDEDFLKDR-----VKKDKKWAAFADKEADAIDRIRTE--IADIASQTGMAL 417
Query: 253 PELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++
Sbjct: 418 PEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 477
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKG 364
++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G
Sbjct: 478 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQG 537
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 424
P+ + +AE L+M +KVR KV + +E SL G+ S++ D + N
Sbjct: 538 REPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKN 589
Query: 425 PWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRER 480
VD LK+ V + ++ +L RE ++R+ +G+ T E++ ++ ++RER
Sbjct: 590 AIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER 648
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
+RQ+ AL KLKH +R +KM + L
Sbjct: 649 IRQIEAKALRKLKHPSRSRKMRSFL 673
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 177/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ +
Sbjct: 267 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR---------- 315
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + +A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD S
Sbjct: 316 -ELHYVVQDGQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 374
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 375 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDE 434
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 435 LAQELEMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 485
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+
Sbjct: 486 AVSFMMLQEQLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEA 544
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 545 KTMSKLRHPARSQSLRDYL 563
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 177/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V LSK+I+ GL +H L+ K+ +
Sbjct: 267 VKDYLKQIGKVALLNAEQEVDLSKRIEAGL-YAEHLLKTKQETMTPKQIR---------- 315
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + +A+ L+ +N+RLV+++A++Y G DL+Q G +GL+R +EKFD S
Sbjct: 316 -ELHYVVQDGQMAKNHLLEANLRLVVALAKKYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 374
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 375 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPDE 434
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A+ L M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 435 LAQELEMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 485
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + +GL D + T ++I +R G++RER+RQ+
Sbjct: 486 AVSFMMLQEQLQR-VLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEA 544
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 545 KTMSKLRHPARSQSLRDYL 563
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 191 AKQKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 250
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L + G PSV +A+ L+M+ +KV
Sbjct: 251 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLQLGYEPSVSELAKALDMTDEKV 310
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D ++N P V+ L++ +
Sbjct: 311 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADSNVVSPEGNVESVMLREHIET 362
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ + ++RER+RQ+ AL KL++ R K
Sbjct: 363 L-LADLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRNPIRSK 421
Query: 500 KMEAML 505
K+ L
Sbjct: 422 KIRDFL 427
>gi|428771678|ref|YP_007163468.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428685957|gb|AFZ55424.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 386
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 111/317 (35%), Positives = 176/317 (55%), Gaps = 18/317 (5%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA-A 246
++ ++ Y++ + LL E + L+++I L L+ + L E LG P+ E+ A A
Sbjct: 72 FTEDSIRVYLQEIGRIRLLRAEEEIELARQIADLLDLEYIRSTLIEHLGRVPTDEEWAIA 131
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
S + + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R
Sbjct: 132 SDMPNMRQFNRRLHIGRKAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA 191
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GV 365
EKFD KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I+ L +K G
Sbjct: 192 EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKMLSQKMGR 251
Query: 366 TPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENN 424
P+ + IAE + M+ +K+R F P SL G+ S + D +E +
Sbjct: 252 KPTEEEIAEDMEMTIEKLR---------FIAKSAQLPISLETPIGKEEDSRLGDF-IEAD 301
Query: 425 ---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRER 480
P V L++++ ++ +L RER+++RL YGLD + T E+I + ++RER
Sbjct: 302 GETPEDEVSKNLLREDLEN-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 360
Query: 481 VRQVGLVALEKLKHAAR 497
+RQ+ AL KL+H R
Sbjct: 361 IRQIEAKALRKLRHPNR 377
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 173 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 232
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L+M+++KV
Sbjct: 233 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANALDMTEEKV 292
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 293 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 344
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 345 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 403
Query: 500 KMEAML 505
++ L
Sbjct: 404 RIRDFL 409
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 224 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 283
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 284 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 343
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 344 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 397
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 398 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 457
Query: 503 AMLV 506
V
Sbjct: 458 DFKV 461
>gi|170076992|ref|YP_001733630.1| group II sigma-70 type sigma factor [Synechococcus sp. PCC 7002]
gi|1769590|gb|AAB95227.1| sigma factor [Synechococcus sp. PCC 7002]
gi|169884661|gb|ACA98374.1| Group II sigma-70 type sigma factor (RpoD family) [Synechococcus
sp. PCC 7002]
Length = 365
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 181/317 (57%), Gaps = 14/317 (4%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI-SRP 253
+ K + LL E ++L+ +K ++ +L L+E+LG P+ E+ A+ L + +
Sbjct: 56 AFFKEMARYPLLKPDEEIQLAHSVKFLNDAEERRLELQEQLGRSPTNEEWASVLGLETVK 115
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
+L S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G IGL R EKFD +K
Sbjct: 116 QLNSALYKGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNK 175
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRI 372
G+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L++ P+ +
Sbjct: 176 GYKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQTLQRNPTEAEL 235
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGV 429
A+ L+++ + + ++ L R++ SLN G+ + + D ++ P +
Sbjct: 236 AQELDIT-------ADQLHQLLQLRRQSL-SLNHRVGKGEDTELVDLLEDDGLQLPEERM 287
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVA 488
+ ++ E+ ++ L +RE+E+I L YGL E T E++ LSRERVRQ+ A
Sbjct: 288 SEAMMRQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGMFNLSRERVRQIQSKA 347
Query: 489 LEKLKHAARKKKMEAML 505
+ KL+ +++++ L
Sbjct: 348 MRKLRRPQVARRLKSWL 364
>gi|75908126|ref|YP_322422.1| RNA polymerase sigma factor [Anabaena variabilis ATCC 29413]
gi|75701851|gb|ABA21527.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413]
Length = 327
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 96/303 (31%), Positives = 174/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ +SL D K L ++L EPS+ + A ++ S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVYGKQVQQMMSLIDAKEALAKKLDREPSLPEWADHVQKSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 TEVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L + G +PS
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ L + ++R + SLD + G +T + ++ + ++ +
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVKV-----GDNQDTELQEMLEDEGPSPEYYTTQE 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALE 490
+ L+ ++N L + L ++RE++ L +G LD L+ + +R+ LSRERVRQ+ AL
Sbjct: 255 F-LRQDLNTL-LAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQALA 312
Query: 491 KLK 493
L+
Sbjct: 313 HLR 315
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 228 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 287
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 288 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 347
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 348 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 401
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 402 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 461
Query: 503 AMLV 506
V
Sbjct: 462 DFKV 465
>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 = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASL----------------------RISRPELQSILMECSLARE 267
RL LG PS+E+ A++ +++ EL I + A+E
Sbjct: 136 RLVSELGHRPSLERWASTAGIKLVDLKPTLSEGKRRWAEIAKLTVEELDQIQSQGIQAKE 195
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 196 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 255
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 256 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVREV 315
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L + L
Sbjct: 316 LLRVPRSVSLETKVGKDKDTELGELLETDTI------TPEETLMRESLQKDIHHL-LSDL 368
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RERE+I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 369 TTREREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQPKRR 421
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 175/295 (59%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 145 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 196
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 197 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 256
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 257 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 309
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 310 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 366
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H++R K+++ L
Sbjct: 367 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHSSRSKQLKDFL 421
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L++SN+RLV+S+A+RY G DL+Q G +GL++ +EKFD SKG+K STY WW
Sbjct: 130 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 189
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + I+ K ++E G PS++ IAE + K+
Sbjct: 190 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYVQEHGEEPSIEYIAEQVGKPVDKI 249
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+A + SL+ +N + +IAD + +P +++E++KL +
Sbjct: 250 EEILQAAPETLSLE----TPVNEEDDSSMGDFIADESI-GSPKKEAIRTLMREEIDKL-L 303
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
TL +RE++++++ YGL + + +T E++ + G++RER+RQ+ + AL KL+H +R +
Sbjct: 304 ETLNDREKKVLKMRYGLYNGKPMTLEEVGQFFGVTRERIRQIEVKALRKLRHPSRSR 360
>gi|443311966|ref|ZP_21041588.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442778041|gb|ELR88312.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 327
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 176/305 (57%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ +SL + K L ++L EP+ ++ A + I+
Sbjct: 20 VRTYLREIGRVPLLTREQEIIYGKQVQQMMSLLEAKEALAKQLHREPTSDEWATQVDIAA 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 AELPETIKRGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G +P+ +
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKVQRELAQKLGRSPNANE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW--HGV 429
IA L + ++R + +L R+ SL+ G+ + + D ++ P H +
Sbjct: 200 IAIALELEPAQIR-------EYLNLARQPV-SLDIRVGDNQDTELQDLLEDDGPSPDHFM 251
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
AL+ +++ L + L ++R ++ L +GL D L+ + +R+ LSRERVRQ+ A
Sbjct: 252 TQEALRQDIDNL-LAELTPQQRSVVSLRFGLVDGNELSLAKVGERLNLSRERVRQLEHQA 310
Query: 489 LEKLK 493
L L+
Sbjct: 311 LAHLR 315
>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 (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHRKGFKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 499 KKMEAML 505
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|406837892|ref|ZP_11097486.1| RNA polymerase sigma factor RpoD [Lactobacillus vini DSM 20605]
Length = 375
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +LRI + + + A+++L +N+RL
Sbjct: 98 SGVKINDPVRMYLKEIGRVNLLTADEEVALALRIEKGDEE--------AKQRLAEANLRL 149
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 150 VVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 209
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M KVR ++
Sbjct: 210 ARTIRIPVHMVETINKLIRIQRQMLQDLGREPTPEEIGAEMDMPTDKVR-------EILK 262
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D +++ D A LK+++ ++ TL +RE
Sbjct: 263 IAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPADHAAYELLKEQLES-VLETLTDREEN 320
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K++ L
Sbjct: 321 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLRDFL 374
>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 (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 134 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 193
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAQLDMPVERV 253
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 254 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 305
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 306 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 364
Query: 500 KM 501
K+
Sbjct: 365 KL 366
>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 = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>gi|366085904|ref|ZP_09452389.1| RNA polymerase sigma factor RpoD [Lactobacillus zeae KCTC 3804]
Length = 416
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>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 = 97/275 (35%), Positives = 161/275 (58%), Gaps = 19/275 (6%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
R++ +G P E+L ++I + ++ A++ ++ SN+RLV+SIA++Y N G
Sbjct: 308 RIQNLIGVFPE-EELPKVMKIIEQGRKKVVQ----AKQVMIQSNLRLVVSIAKKYVNRGL 362
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
DL+Q G IGL++ ++K+D KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E
Sbjct: 363 HFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIET 422
Query: 350 LG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLP 408
+ +I+ +K +E G P+ + IAEYL++ +KV+ KV +E SL
Sbjct: 423 INKIIKASKKLFQENGREPTPEEIAEYLDIPVEKVK-------KVMKFSQEPI-SLETPI 474
Query: 409 GETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKEC 464
G+ +++ D ++ NP V L++++ K ++ TL E+EREI+ YGL D
Sbjct: 475 GDDDDTFLKDFIEDKSIPNPEEQVTRKLLREQLQK-VLSTLSEKEREILMYRYGLVDGTE 533
Query: 465 LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
T E + K ++RER+RQ+ AL KL+H AR K
Sbjct: 534 YTLEQVGKMFNVTRERIRQIENKALRKLRHPARAK 568
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 104/303 (34%), Positives = 177/303 (58%), Gaps = 31/303 (10%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGCEP--SMEQ---LAASLRISRPELQSILMECSLARE 267
L + G+SL+D ++ LKE +G P SME+ LA S+ + E AR+
Sbjct: 90 LDLSVPEGVSLEDPVRMYLKE-IGKIPLLSMEEEIELAKSMELGNGE----------ARK 138
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ
Sbjct: 139 RLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQ 198
Query: 328 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 386
++R++ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA +++
Sbjct: 199 AITRSIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARVDL-------P 251
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLII 443
E + ++ + +E SL GE S++ D ++N P L +++ + ++
Sbjct: 252 VERVSEILKMSQEPV-SLETPIGEEEDSHLVDFIQDDNVLVPQDAAAFTLLHEQLME-VL 309
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+TL ERE++++RL +GLD T E++ ++ ++RER+RQ+ AL KL+H +R KK++
Sbjct: 310 LTLTEREQKVLRLRFGLDDGRPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPSRSKKLK 369
Query: 503 AML 505
L
Sbjct: 370 DYL 372
>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 (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 175/313 (55%), Gaps = 31/313 (9%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR-PELQSILMECS------------- 263
I+ + L + + RL +LG PS+E+ AA ++ EL+ I+ E
Sbjct: 152 IRRYVELIEARDRLAAQLGHRPSLERWAALAGVAEVSELKRIMAEGKRRWAELAGVTLEA 211
Query: 264 ---------LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
A++ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD ++G
Sbjct: 212 LDQMITEGIQAKDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRG 271
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIA 373
++ STY YWWIRQG++RA+ SRT+RLP H+ E+L I+ A+ ++ +EKG T S++ IA
Sbjct: 272 YRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTASIEDIA 331
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L M+ +VR + + SL+ + G +T + D+ +P + A
Sbjct: 332 AELGMTAPQVREVLLRVPRSVSLETKV-----GNEKDTELGDLLDDADSVSPEELLMREA 386
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
L ++ +L + L RER++I + +GL D + +I + + LSRERVRQ+ AL+KL
Sbjct: 387 LHRDLQQL-LADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKL 445
Query: 493 KHAARKKKMEAML 505
+ R+ ++ L
Sbjct: 446 RQPKRRNRVRDYL 458
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>gi|33862185|ref|NP_893746.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
gi|33634403|emb|CAE20088.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
Length = 333
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 92/311 (29%), Positives = 181/311 (58%), Gaps = 16/311 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ ++ + E +PS E+LA L +S
Sbjct: 26 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAEIEIMELTDNKPSPEELAEKLNLST 85
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 86 SQIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 145
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP++
Sbjct: 146 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTISE 205
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 206 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 257
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L + L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 258 EMDCMRGDLHSL-LHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 316
Query: 486 LVALEKLKHAA 496
L L +L +
Sbjct: 317 LRGLRRLSESV 327
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 93 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 152
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE +NMS ++V
Sbjct: 153 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAEEMNMSVERV 212
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 213 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 264
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 265 -VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 323
Query: 500 KMEAML 505
K++ L
Sbjct: 324 KLKDYL 329
>gi|157414236|ref|YP_001485102.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9215]
gi|157388811|gb|ABV51516.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9215]
Length = 344
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/307 (30%), Positives = 180/307 (58%), Gaps = 16/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + ++ +L E G +PS+++L+ L +S
Sbjct: 37 VRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERAELEFIELTGDKPSIDELSTKLNLST 96
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
++ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 97 SIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPA 156
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR +RLP H+ E L ++ + L +E TP+V
Sbjct: 157 RGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSE 216
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRV--ENNPWHGV 429
+A+Y+ + + V++ G+ SL+ + G+ + + D E+ P +
Sbjct: 217 LAKYVELPEDDVKDLMCKAGQPVSLETKV--------GDGEDTVLLDLLAGGEDLPDEQI 268
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ ++ +++ L+ L + + ++R+ YG+D E ++ I + +G+SR+RVR + G
Sbjct: 269 EMDCMRGDLHSLL-HQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDG 327
Query: 486 LVALEKL 492
L L +L
Sbjct: 328 LRGLRRL 334
>gi|75907387|ref|YP_321683.1| RNA polymerase sigma factor SigC [Anabaena variabilis ATCC 29413]
gi|75701112|gb|ABA20788.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena variabilis ATCC
29413]
Length = 416
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 168/293 (57%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + + V P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGE----LLETDGV--TPEEMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>gi|218439771|ref|YP_002378100.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7424]
gi|218172499|gb|ACK71232.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 328
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 183/312 (58%), Gaps = 13/312 (4%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + K+++ ++L + K +L LG EP++ + A
Sbjct: 13 PTFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDQLAIELGKEPNLTEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+++S EL + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 NQVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L ++ G
Sbjct: 133 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQQLG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN- 423
+ + IA+ L++ ++R + S+ R+ SL+ G+ + +++ +
Sbjct: 193 RSATPAEIAKALDLEPAQIR-------EFLSMSRQPI-SLDVRVGDNQDTELSELLEDEG 244
Query: 424 -NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
+P + + ++ +++ L + L ++RE++ L +GL D + L+ I +R+ +SRERV
Sbjct: 245 ISPDNYITQELMRQDLHDL-LAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERV 303
Query: 482 RQVGLVALEKLK 493
RQ+ AL +L+
Sbjct: 304 RQLEHQALSQLR 315
>gi|428307386|ref|YP_007144211.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428248921|gb|AFZ14701.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 327
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 102/315 (32%), Positives = 173/315 (54%), Gaps = 11/315 (3%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + K+++ ++L D K L E+ EP+ + A
Sbjct: 13 PLFTADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALIDAKEALAEQQNREPTASEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
A + +S EL I+ A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 AQVHLSEDELTRIITLGQRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +G+K STY YWWIRQ ++RA+ + +R +RLP H+ E+L I+ + L +K G
Sbjct: 133 VEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKTQRELAQKLG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 424
+ IA L + ++R + SLD G +T S + ++ +
Sbjct: 193 RHATPTEIAVALELEPAQIREYLNIARQPVSLDVRV-----GDNQDTELSELLEDE-GPS 246
Query: 425 PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
P H +L+ +++ L + L ++RE+I L +GL D L+ + +R+ LSRERVRQ
Sbjct: 247 PEHFTTQESLRQDLDDL-LAELTPQQREVITLRFGLQDGNELSLAKVGQRLNLSRERVRQ 305
Query: 484 VGLVALEKL--KHAA 496
+ AL L +HA+
Sbjct: 306 LEHQALAHLRRRHAS 320
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>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 (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 107/311 (34%), Positives = 183/311 (58%), Gaps = 29/311 (9%)
Query: 200 VVSEELLTHAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPEL 255
V++EE E + LS + G+S++D ++ LKE +G P + E++ + R++ +
Sbjct: 75 VITEEDEVDVEKIDLS--VPDGISIEDPVRMYLKE-IGKVPLLSAEEEIELAKRMAEGD- 130
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGF
Sbjct: 131 -------EDAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYEKGF 183
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAE 374
K STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE
Sbjct: 184 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAE 243
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDD 431
L+M ++VR ++ + +E SL GE S++ D ++N P
Sbjct: 244 ELDMPVERVR-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAA 295
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
LK+++ + ++ TL +RE++++RL +G+ D T E++ K ++RER+RQ+ AL
Sbjct: 296 TLLKEQLGE-VLNTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALR 354
Query: 491 KLKHAARKKKM 501
KL+H +R +K+
Sbjct: 355 KLRHPSRSRKL 365
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 139 SGVKINDPVRMYLKEIGRVSLLTTDEEVALALKIEQGDQE--------AKQRLAEANLRL 190
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 191 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 250
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 251 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 303
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 304 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 360
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 361 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 415
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 109/324 (33%), Positives = 180/324 (55%), Gaps = 24/324 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + LLT AE + L+ KI+ G+ E+L + S
Sbjct: 115 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVEA-------GEQLEAAEADNAEELS 167
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
R R L I A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +E
Sbjct: 168 RREHR-RLTRIEAVGLDAKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 226
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G
Sbjct: 227 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRE 286
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ + IAE ++++ +VR ++ + +E SL GE S + D +E++
Sbjct: 287 PTPEEIAEEMDLTPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAA 337
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P L++++ K ++ L ERER++I L +GL D T E++ + G++RER+
Sbjct: 338 VVPPDAASFSMLQEQLTK-VLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERI 396
Query: 482 RQVGLVALEKLKHAARKKKMEAML 505
RQ+ L KL+H +R K++ L
Sbjct: 397 RQIESKTLAKLRHPSRSSKLKDYL 420
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 94/278 (33%), Positives = 165/278 (59%), Gaps = 23/278 (8%)
Query: 241 MEQLAASLRISRPELQSILMECS----LARE---KLVMSNVRLVMSIAQRYDNMGADMAD 293
+++L A + L++ LM C LAR+ +LV +N+RLV+SIA++Y N G D
Sbjct: 320 IQKLRAEAAMDEENLKAALMSCEEGEYLARKAKSELVQANLRLVVSIAKKYTNRGLQFLD 379
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-L 352
L+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L
Sbjct: 380 LIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKL 439
Query: 353 IRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH 412
IR ++ ++E G P+ + IAE + +KVR KV + +E SL GE
Sbjct: 440 IRTSRYLVQEYGREPTPEEIAEKMEFPLEKVR-------KVLKIAKEPI-SLETPIGEEE 491
Query: 413 HSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTW 467
S++ D +E+ +P V +L ++ K ++ TL RE +++R+ +G+ ++ T
Sbjct: 492 DSHLGDF-IEDKKILSPSDAVVGMSLTEQTRK-VLATLTPREEKVLRMRFGIGERADHTL 549
Query: 468 EDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E++ + ++RER+RQ+ AL+KL+H +R K++ +
Sbjct: 550 EEVGQDFDVTRERIRQIEAKALKKLRHPSRSKRLRPFI 587
>gi|33863339|ref|NP_894899.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
gi|33640788|emb|CAE21243.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9313]
Length = 320
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/294 (31%), Positives = 173/294 (58%), Gaps = 9/294 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ +SL+ + L+ + G S ++LA + +S
Sbjct: 13 VRSYLRDIGRVPLLSHEQEITLGRQVQELMSLEQLESELEGQTGEPASRKELAKAAGLSE 72
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 73 LQLKKKLQSGRRAKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 132
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 133 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSE 192
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE++ + +++V++ + SL+ + G+ E P V+
Sbjct: 193 LAEFVELPEEEVKDLMCRARQPMSLEMKVG------DGDETELLELLAGEEELPSEKVEV 246
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV 484
+K ++ L + L E + ++R+ YG+D E + I+K +G+SR+R R++
Sbjct: 247 DCMKGDLRTL-LEKLPELQGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRL 299
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY W
Sbjct: 132 LAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYQKGFKFSTYATW 191
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +++ +K
Sbjct: 192 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEK 251
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVN 439
VRN + + +E SL GE S++ D +++ D+ A LK+E+
Sbjct: 252 VRN-------ILKVSQEPV-SLETPIGEEDDSHLGDFIEDDHALSPSDNAAYELLKNEL- 302
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL +RE ++RL +GLD T ED+ K ++RER+RQ+ AL KL+H +R
Sbjct: 303 KDVLDTLTDREENVLRLRFGLDDGRQRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRS 362
Query: 499 KKMEAML 505
K+++ L
Sbjct: 363 KQLKDFL 369
>gi|449017038|dbj|BAM80440.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 721
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 103/340 (30%), Positives = 170/340 (50%), Gaps = 52/340 (15%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + +LL E V LS+++ + L+ + +E+ G P+ + A
Sbjct: 408 IRSYLYEIGRYQLLQPGEEVELSRQVCVLMDLERFQKSFREQHGKSPTELEWARGCGYGE 467
Query: 253 P--ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
L+ + + A+E++V +N+RLV+SIA+RY N G + DL+Q G IGL+RG+EKFD
Sbjct: 468 DVEALRKHIRDGRSAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIRGVEKFD 527
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
+ +GF+ STY WWIRQ ++RA+ ++SR++RLP H+H+ + +IR L + G P
Sbjct: 528 AGRGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISMIRKHTKALHTQLGRPPRE 587
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
D I E + + K R E + SL+ P HG
Sbjct: 588 DEICESVGIDIAKYRLIMECSQNIVSLE--------------------------TPMHGT 621
Query: 430 DDW---------------------ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTW 467
DD L+D + K ++ L RERE+IR+ +GL D T
Sbjct: 622 DDIHNLGESLISPEERSEDTVSRDTLRDSIEK-VLRCLTAREREVIRMRFGLADGRPRTL 680
Query: 468 EDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVK 507
E++ + ++RER+RQ+ AL+KL+ A ++ L +
Sbjct: 681 EEVGVKFNVTRERIRQIESKALKKLRIPAENNFLDEYLTE 720
>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 = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILMECSLARE 267
RL LG PS+E+ A++ I +P EL I + A+E
Sbjct: 133 RLVSELGHRPSLERWASTAGIKLMDLKPTLSEGKRRWGEIAQLTVEELDEIQSQGIQAKE 192
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 193 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 252
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 253 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVREV 312
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L + L
Sbjct: 313 LLRVPRSVSLETKVGKDKDTELGELLETDTI------TPEETLMRESLQKDIHHL-LSDL 365
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RERE+I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 366 TTREREVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQPKRR 418
>gi|17229184|ref|NP_485732.1| RNA polymerase sigma factor SigC [Nostoc sp. PCC 7120]
gi|20141790|sp|Q03066.2|RPSC_ANASP RecName: Full=RNA polymerase sigma-C factor
gi|17135512|dbj|BAB78058.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
Length = 416
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDGV------TPEEMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 500 KMEAML 505
K+ L
Sbjct: 364 KLRDYL 369
>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 (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 499 KKMEAML 505
K+++ L
Sbjct: 368 KRLKDFL 374
>gi|142114|gb|AAA22047.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
Length = 416
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDGV------TPEEMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 91/241 (37%), Positives = 146/241 (60%), Gaps = 11/241 (4%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K+ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 377 AKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 436
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 382
IRQ +SRA+ + +RT+R+P H+ E + I N +R L+E+G P +D+IAE + + K
Sbjct: 437 IRQAISRAIADQARTIRIPIHMIETINRI-NKIMRKYLQEEGKEPDIDKIAEEVGLPVDK 495
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLI 442
V+N + + SL+ P NG G +++ P + LK++++ +
Sbjct: 496 VKNVIKITKEPISLEA---PIGNGEDG--KFGDFVEDKGSVGPMESILKEDLKEQIDD-V 549
Query: 443 IVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
+ L ERE+ +IR+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH +K
Sbjct: 550 LDQLNEREKAVIRMRFGLLEDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRK 609
Query: 501 M 501
+
Sbjct: 610 L 610
>gi|406830145|ref|ZP_11089739.1| RNA polymerase sigma factor RpoD [Schlesneria paludicola DSM 18645]
Length = 553
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 145/247 (58%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +L N+RLV+SIA++Y N G DL+Q G GL+R ++K++ +G+K STY WW
Sbjct: 306 AMRELSGGNLRLVVSIAKKYRNRGLSFLDLIQEGNTGLMRAVDKYEYRRGYKFSTYATWW 365
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + +R R L+EKG P+++ AE +S ++
Sbjct: 366 IRQAITRAIADQARTIRIPVHMIETMSKLRKVSKRLLQEKGREPTIEETAEAAGVSLEET 425
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 439
R + SLDR GE+ SY D +E++ P + LKD+++
Sbjct: 426 RRVLKISRHPISLDRPV--------GESEDSYFGDF-IEDDSTESPVNSATQEMLKDKID 476
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+++ TL REREII+L YGL D T E++ + ++RERVRQ+ A+ KL+H R
Sbjct: 477 -VVLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIEAKAVRKLQHPVRS 535
Query: 499 KKMEAML 505
K+++ L
Sbjct: 536 KQLKGFL 542
>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 = 4e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 138 ARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E ++++ +KV
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 258 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPSDHAAYELLKEQLE 308
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 309 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 367
Query: 499 KKMEAML 505
K+++ L
Sbjct: 368 KRLKDFL 374
>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 (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 167/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ A + I +L+ L+E A+E
Sbjct: 121 RLSSELGHRPSLERWAKTAGIDLADLKPTLLEGKRRWAEIAKLKVEELENVQSQGLQAKE 180
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 181 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 240
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 241 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTLEDLAIELDMTPTQVREV 300
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + + + P + +L+ +++ L + L
Sbjct: 301 LLRVPRSVSLETKVGKDKDTELGE----LLETDSI--TPEEMLMRESLQKDLHHL-LADL 353
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 354 TSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 406
>gi|428208337|ref|YP_007092690.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428010258|gb|AFY88821.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 400
Score = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 176/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + +++ + L+++L +P+ E+L A L IS +
Sbjct: 92 AFFKEMARYPLLKADEEVELARRVRFLVEVEETQRGLQKQLKRQPNREELIAELGISDKQ 151
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 152 LEHQLYLGRVAKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRATEKFDPDKG 211
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ + L++K PS +A
Sbjct: 212 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKYQRELKQKLQRNPSEIELA 271
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
L + +++R + K SL+ G +T + ++ +P + +
Sbjct: 272 AALEVPPEQLRQLQQLRRKALSLNHRV-----GKEEDTELVDLLEDNDAQSPEQQMSETM 326
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ ++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 327 MRQEIWDVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQIQSKAMRKL 386
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 387 RRPHIAKRLKGWLL 400
>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 (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 101/305 (33%), Positives = 170/305 (55%), Gaps = 31/305 (10%)
Query: 218 IKTGLSLDDHKLRLKERLGCEPSMEQLAASL----------------------RISRPEL 255
I+ L L + + RL LG PS+E+ A + +++ EL
Sbjct: 108 IEPYLRLIEVQERLTSELGHRPSLERWATTAGIVLSDLKPTLANGKRRWAEIAKLTVEEL 167
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG+
Sbjct: 168 EQIQTQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 227
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAE 374
+ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A
Sbjct: 228 RFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAV 287
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L M+ +VR + + SL+ + + GE + P + +L
Sbjct: 288 ELEMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLETDCV------TPEEMLMRESL 341
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+ ++ L + L RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+
Sbjct: 342 QRDLQHL-LADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLR 400
Query: 494 HAARK 498
R+
Sbjct: 401 QPKRR 405
>gi|87301677|ref|ZP_01084517.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
gi|87283894|gb|EAQ75848.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
Length = 349
Score = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 99/328 (30%), Positives = 188/328 (57%), Gaps = 17/328 (5%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE-PSMEQL 244
P + + ++ Y++ + LLTH + + L ++++ + L++ + L+ R G + PS +
Sbjct: 31 PPVDGDLVRSYLRDIGRVPLLTHEQEITLGRQVQELMRLEEAEQELEMRAGGQKPSAAEW 90
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A++ +S L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+R
Sbjct: 91 ASAAGLSPALLKRKLSSGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVR 150
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 363
G+EKFD ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E
Sbjct: 151 GVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQEL 210
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G TP++ +A + + +++V++ + SL+ + G+ + + D +
Sbjct: 211 GRTPTLSELAVCVELPEEEVKDLLCRARQPVSLETKV--------GDGEDTELLDLLQGD 262
Query: 424 N--PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRER 480
P VD L+ ++ L + L E +R ++ + YG+D +E ++ I + +G+SR+R
Sbjct: 263 GTLPAESVDSECLRGDMRAL-LEQLPELQRSVLSMRYGIDVEEPMSLTGIGRILGMSRDR 321
Query: 481 VRQV---GLVALEKLKHAARKKKMEAML 505
+R + GL +L +L + AM+
Sbjct: 322 IRNLERDGLASLRRLSDQVKDYSDAAMI 349
>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 (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 102 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 161
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 162 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 221
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 222 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 275
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 276 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 335
Query: 503 AMLV 506
V
Sbjct: 336 DFKV 339
>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 = 159 bits (402), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 160/274 (58%), Gaps = 18/274 (6%)
Query: 237 CEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
C S+E+L + R E+ A+ +LV +N+RLV+SIA++Y N G DL+Q
Sbjct: 435 CRSSVEELRQTFR----EMSDGERMAERAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQ 490
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R
Sbjct: 491 EGNIGLMKAVDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLVRT 550
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ ++E G P+ + IAE + + KVR KV + +E SL GE S+
Sbjct: 551 SRYLVQELGREPTPEEIAERMELPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSH 602
Query: 416 IAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDIS 471
+ D ++ +P V L ++ K ++ TL RE +++R+ +G+ +K T E++
Sbjct: 603 LGDFIEDKSVTSPSDAVISVNLAEQTRK-VLATLTPREEKVLRMRFGIGEKSDHTLEEVG 661
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ ++RER+RQ+ AL KL+H +R K+++A +
Sbjct: 662 QDFEVTRERIRQIEAKALRKLRHPSRSKRLKAFV 695
>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 (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 149/247 (60%), Gaps = 14/247 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY W
Sbjct: 131 IAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYEKGFKFSTYATW 190
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ + I +++ +K
Sbjct: 191 WIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPTPEEIGAEMDLPTEK 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVN 439
VR+ + + +E SL GE S++ D ++ D+ A LK E+
Sbjct: 251 VRD-------ILKISQEPV-SLETPIGEEEDSHLGDFIEDDGALSPSDNAAYELLKGEL- 301
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+ AL KL+H +R
Sbjct: 302 KGVLDTLTDREENVLRLRFGLDDGRQRTLEDVGKVFGVTRERIRQIEAKALRKLRHPSRS 361
Query: 499 KKMEAML 505
K+++ L
Sbjct: 362 KQLKDFL 368
>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 (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 98/293 (33%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ A++ + EL+ IL + ++E
Sbjct: 120 RLASELGHRPSIERWASAAGVEVLELKQILGQGKRRWAEIAKLTVEELEKIQSDGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A+ L M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAQELEMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDCV------TPEDMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGQPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 95/282 (33%), Positives = 166/282 (58%), Gaps = 22/282 (7%)
Query: 230 RLKERLGCEPSMEQLAASL-RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMG 288
++KER P +L + L R+ R L + S A+ +L+ +N+RLV+SIA++Y N G
Sbjct: 322 QVKERTNMTPR--ELKSELERVERS-----LEKASRAKSELIQANLRLVVSIAKKYTNRG 374
Query: 289 ADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE 348
DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++RA+ + +RT+R+P H+ E
Sbjct: 375 LMFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIE 434
Query: 349 RLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGL 407
+ L+R ++ ++E G P+ + IAE + KVR KV + +E SL
Sbjct: 435 TINKLMRTSRYLVQEHGREPTSEEIAEKMEFPLDKVR-------KVLKIAKEPI-SLETP 486
Query: 408 PGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKE 463
GE S++ D + N P V ++ L ++ K ++ TL RE +++R+ +G+ +K
Sbjct: 487 IGEEEDSHLGDFIEDKNILSPGDAVVNFGLAEQTRK-VLTTLTPREEKVLRMRFGIGEKA 545
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ + ++RER+RQ+ AL KL+H +R +K+++ +
Sbjct: 546 DHTLEEVGRDFSVTRERIRQIEAKALRKLRHPSRSRKLKSFM 587
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 185
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE +++ ++V
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEMDIPVERV 245
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + N P LK+++++
Sbjct: 246 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDENVPVPADAAAFTLLKEQLDE 297
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 298 -VLGTLTEREQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 356
Query: 500 KMEAML 505
K++ L
Sbjct: 357 KLKDYL 362
>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 (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 90/250 (36%), Positives = 154/250 (61%), Gaps = 16/250 (6%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 339 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 398
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +N+
Sbjct: 399 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPL 458
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 436
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 459 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 509
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 510 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 568
Query: 496 ARKKKMEAML 505
+R KK+++ +
Sbjct: 569 SRAKKLKSFV 578
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 102/296 (34%), Positives = 169/296 (57%), Gaps = 25/296 (8%)
Query: 218 IKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKLVMSN 273
+ G+S+DD ++ LKE +G P + E++ + R++ + A++KLV +N
Sbjct: 105 VPKGISIDDPVRMYLKE-IGKIPLLKPHEEVEYAKRMAEGD--------EFAKQKLVEAN 155
Query: 274 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++RA+
Sbjct: 156 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWWIRQAITRAI 215
Query: 334 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 392
+ +RT+R+P H+ E + LIR ++ L+E G P D IA+ +NM+++KVR +
Sbjct: 216 ADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPDEIAKEMNMTEEKVREIMKIAQD 275
Query: 393 VFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGERE 450
SL+ GE S++ D + ++L E + ++ TL +RE
Sbjct: 276 PVSLETPI--------GEEEDSHLGDFIPDEDAPAPAEAAAYSLLKEQIEDVLNTLNDRE 327
Query: 451 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ +++L +GL D T E++ K ++RER+RQ+ AL KL+H +R KK+ L
Sbjct: 328 QNVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLRDFL 383
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 176/317 (55%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL A+ V L+++++ GL + ERL P + A
Sbjct: 59 FRQYLREIGRIPLLGAADEVELARRVEAGLFAE-------ERLAATPGPDTRLAQ----- 106
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L ++++ +A +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 107 -DLGRLVVQGRMAERRLIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYT 165
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G PS +
Sbjct: 166 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAEE 225
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A L+++ ++V + L +E SL+ GE D + + V+
Sbjct: 226 VAAQLDLTPERVET-------ILRLAQEPV-SLHAPVGEEDDVAFGDLIEDGDAPSPVES 277
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
A L E + ++ TLGERER++++L YGLD T E+I + G++RER+RQ+
Sbjct: 278 AAFLLLREHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKT 337
Query: 489 LEKLKHAARKKKMEAML 505
L +L+ A ++ L
Sbjct: 338 LARLRDHAFADQLRGYL 354
>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 (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 165/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASL----------------------RISRPELQSILMECSLARE 267
RL LG PS+E+ AA+ +I+ EL+ I + ++E
Sbjct: 120 RLASELGHRPSLERWAATAGVQLSDLKPTLSEGKRRWAEIAKITVEELEQIQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPSQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDSV------TPEEMLMRESLQRDLQNL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TTRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 185 ELEEIIALGTHAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQIRGRTATVEEI 304
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
A+ L ++ + VR + + SL+ + G +T + + ++ H V +
Sbjct: 305 AQELALTPEAVREVLMTVPRSVSLEIKV-----GKEKDTELIDLLETEAVSSENHFVYE- 358
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L+ ++ +L + L RERE+I L YG LD + + DI + + LSRERVRQ+ AL+K
Sbjct: 359 SLQRDIREL-LADLTTREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIESKALQK 417
Query: 492 LKHA 495
L+ +
Sbjct: 418 LRQS 421
>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 (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 93 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 152
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 153 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 212
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 213 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 266
Query: 444 VTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 267 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 326
Query: 503 AMLV 506
V
Sbjct: 327 DFKV 330
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 145 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 196
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 197 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 256
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 257 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 309
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 310 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 366
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 367 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 421
>gi|581612|emb|CAA37172.1| unnamed protein product [Streptomyces coelicolor A3(2)]
Length = 396
Score = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 107/317 (33%), Positives = 181/317 (57%), Gaps = 25/317 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ AE V L+++++ GL + E+L C P ++ A
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL----- 147
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 148 -DLDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 206
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 207 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQE 266
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A +L++ A E +G+V L +E SL+ GE + D + + V+
Sbjct: 267 VAAHLDL-------APERVGEVLRLAQEPV-SLHAPVGEEDDVALGDLIEDGDAASPVES 318
Query: 432 WA--LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
A L + + ++ TLGERER++++L YGL D T E+I + G++RER+RQ+
Sbjct: 319 AAFLLLRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLGGVTRERIRQIESKT 378
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 379 LSKLRDHAYADQLRGYL 395
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 157/256 (61%), Gaps = 9/256 (3%)
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
A + +++ EL+ I + A+E ++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R
Sbjct: 160 AETAKLTVQELEQIQTQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLER 219
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEK 363
+EKFD +KG++ STY YWWIRQG++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EK
Sbjct: 220 AVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEK 279
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G TP+++ +A L M+ +VR + + SL+ + + GE + + V
Sbjct: 280 GRTPTLEDLAVELEMTPAQVREVLLRVPRSVSLETKVGKDKDTELGE----LLETDGV-- 333
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
P + +L+ ++ L + L RER++I + +GL D + +I + + LSRERVR
Sbjct: 334 TPEEMLMRESLQRDLQNL-LADLTTRERDVILMRFGLADGHPYSLAEIGRALDLSRERVR 392
Query: 483 QVGLVALEKLKHAARK 498
Q+ AL+KL+ R+
Sbjct: 393 QIESKALQKLRQPKRR 408
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 93/276 (33%), Positives = 160/276 (57%), Gaps = 19/276 (6%)
Query: 241 MEQLAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMAD 293
++ LA+ IS E + I+ E ++A++++V +N+RLV+ +A++Y N G D
Sbjct: 397 IQGLASETGISISEFRCIVSMVKKGEREANIAKKEMVEANLRLVICVAKKYSNRGLQFLD 456
Query: 294 LVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-L 352
L+Q G IGL++ ++KF+ +G+K STY WWIRQ V+RA+ ++SRT+R+P H+ E + +
Sbjct: 457 LIQEGNIGLMKAVDKFEYKRGYKFSTYAMWWIRQAVTRAIADHSRTIRIPVHMIETINKI 516
Query: 353 IRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETH 412
+R ++ L E G P+ D +AE L M +KVR KV + +E SL G+
Sbjct: 517 VRTSRQMLNEIGREPTPDELAEKLIMPLEKVR-------KVLKIAKEPI-SLETPVGDEE 568
Query: 413 HSYIADNRVENNPWHGVDDWALKD--EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWED 469
S++ D + N +D + E L++ +L RE ++R+ +G+ T E+
Sbjct: 569 DSHLGDFIEDKNAISPIDAAIQSNLRETTTLVLASLTPREERVLRMRFGIGMNTDHTLEE 628
Query: 470 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ ++ ++RER+RQ+ AL KLKH +R KK+ + L
Sbjct: 629 VGQQFSVTRERIRQIEAKALRKLKHPSRSKKLRSFL 664
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KGFK+STY WW
Sbjct: 172 AKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGFKLSTYATWW 231
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV +A L M+++KV
Sbjct: 232 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVTELANELGMTEEKV 291
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 292 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADANVLTPEGNVESVMLREHIDT 343
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 344 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEAKALRKLRNPVRSK 402
Query: 500 KMEAML 505
++ L
Sbjct: 403 RIRDFL 408
>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 = 159 bits (401), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 145 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 196
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 197 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 256
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 257 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 309
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 310 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 366
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 367 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 421
>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 = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 150/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 264 ASQKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 323
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 324 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 383
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 384 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDG-VL 437
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 438 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 497
Query: 503 AMLV 506
V
Sbjct: 498 DFKV 501
>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 = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 168/293 (57%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILMECSLARE 267
RL LG PS+E+ A + I +P EL+ I + A+E
Sbjct: 120 RLSSELGHRPSLERWATTAGIELSNLKPTLSEGKRRWAEIAELTVLELEKIQSQGLQAKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + + V P + +L+ +++ L+ L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGE----LLETDSV--TPEEMLMRESLQKDLHNLLD-DL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLSDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>gi|87123242|ref|ZP_01079093.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
gi|86168962|gb|EAQ70218.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
Length = 309
Score = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 100/307 (32%), Positives = 182/307 (59%), Gaps = 15/307 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE--PSMEQLAASLRI 250
++ Y++ + LL+H + + L ++++ + L+ + L+++ G E P+ E LA + +
Sbjct: 1 MRSYLRDIGRVPLLSHQQEITLGRQVQELMELEALEAELRDQRGGEAVPAAE-LATAAGL 59
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S +L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 60 SALQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 119
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 120 PTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTV 179
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+A ++ + +++V++ + SL+ + +G E D + P V
Sbjct: 180 TELAGFVELPEEEVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDGEL---PEEQV 233
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---G 485
+ LK ++ L + L + +R ++R+ YG+D +E ++ I + IG+SR+RVR + G
Sbjct: 234 EVECLKGDLRDL-LEQLPDLQRRVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDG 292
Query: 486 LVALEKL 492
L L +L
Sbjct: 293 LAGLRRL 299
>gi|428309492|ref|YP_007120469.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
gi|428251104|gb|AFZ17063.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
Length = 377
Score = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 178/319 (55%), Gaps = 17/319 (5%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+K ++ + +D + RL+ LG +P+ +LA L ++ +
Sbjct: 69 AFFKEMARYPLLKPEEEVDLAKNVQFLVEIDQLQERLQANLGRKPAKAELAQQLNMTERQ 128
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L++ L +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 129 LENRLYRGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPEKG 188
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGV--TPSVDRI 372
+K STY YWWIRQ ++R + ++RT+RLP H+ E+L ++ A+ L++ G+ P+ + +
Sbjct: 189 YKFSTYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRELKQ-GLQRNPNEEEL 247
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHG 428
A+ L + T + + R SLN G+ + + D +E+N P
Sbjct: 248 AKALEI--------TPSNLRQLLQLRRRSLSLNHRVGKGEDTELVD-LLEDNELRLPEEQ 298
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
+ + ++ E+ +++ L ERE+++I L YGL E T E++ LSRERVRQ+
Sbjct: 299 MSETMMRQEIWEVLSDVLTEREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSK 358
Query: 488 ALEKLKHAARKKKMEAMLV 506
A+ KL+ ++++ L
Sbjct: 359 AMRKLRRPQVARRLKGWLT 377
>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 = 5e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 189 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 248
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 249 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 308
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 309 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELD-AVL 362
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 363 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 422
Query: 503 AMLV 506
V
Sbjct: 423 DFKV 426
>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 = 159 bits (401), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 105/310 (33%), Positives = 166/310 (53%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT E V L+K+I+ G+ H L + L E + EL
Sbjct: 49 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTSDDLSEE------------RKAEL 95
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 96 SEVVRDGEEAKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGF 155
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 156 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATHEELAA 215
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+++KKV + + SLD + G+ +I D+ N + V L
Sbjct: 216 ESGIAEKKVADLLDHARDPVSLDMPVGADEDAPLGD----FIEDSEA-ANAENSVISTLL 270
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL +RE +IRL YGLD + T + I K LSRERVRQ+ + KL+
Sbjct: 271 QDDLRR-VLATLDDREEHVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLR 329
Query: 494 HAARKKKMEA 503
H R K+ A
Sbjct: 330 HGERADKLRA 339
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 128/419 (30%), Positives = 212/419 (50%), Gaps = 60/419 (14%)
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-LIQNRLKGYVKGVVSEELLTHAEVVR 213
N + + S++ NG R++ + E L QN +K T A
Sbjct: 61 ----NLLQNVEDAGISVVDANGDPDPRALKATEKLSQNAMKD-----------TSA---- 101
Query: 214 LSKKIKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLV 270
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L
Sbjct: 102 -----PTGVKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGD--------EVAKQQLA 148
Query: 271 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 330
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++
Sbjct: 149 EANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAIT 208
Query: 331 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 389
RA+ + +RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN
Sbjct: 209 RAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN---- 264
Query: 390 IGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLG 447
+ + +E SL GE S++ D + + D A + +L ++ TL
Sbjct: 265 ---ILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLT 320
Query: 448 EREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 321 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNKGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 503 AMLV 506
V
Sbjct: 413 DFKV 416
>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 (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 164/293 (55%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILM----------------------ECSLARE 267
RL LG PS+E+ A + I P+L+ L + A+E
Sbjct: 116 RLSSELGHRPSLERWATTAGIELPDLKPTLANGKRRWAETAKLTVEELDQVQSQGLQAKE 175
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 176 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 235
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR
Sbjct: 236 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPAQVREV 295
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L+ L
Sbjct: 296 LLRVPRSVSLETKVGKDKDTELGELLETDCV------TPEEMLMRESLQRDLHNLLD-DL 348
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 349 TSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 401
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M +K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKI 299
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 503 AMLV 506
V
Sbjct: 414 DFKV 417
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 104/323 (32%), Positives = 183/323 (56%), Gaps = 40/323 (12%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+ + ++ Y++ + LLT E +RL++ ++ G + ERL P+ ++
Sbjct: 133 LDDPVRMYLREIGRVPLLTAHEEIRLAQLMERGKA---------ERLKPAPNYRYIS--- 180
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
E A+++L +N+RLV+S+A++Y G ++ DL+Q G IGL+R +EK
Sbjct: 181 ------------EGEEAQKRLTEANLRLVVSVAKKYIGRGMNLLDLIQEGNIGLIRAVEK 228
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L++ G P
Sbjct: 229 FDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLIRISRRLLQDLGREP 288
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--- 424
+ + IA + +S +KVR ++ + +E SL GE S++ D +E++
Sbjct: 289 TSEEIAAQMEISAEKVR-------EIIKVSQEPV-SLETPIGEEDDSHLGDF-IEDHTAL 339
Query: 425 -PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVR 482
P LK++V ++ +L ERER++++L +GLD T E++ K ++RER+R
Sbjct: 340 APADAASHQLLKEQVED-VLDSLTERERKVLQLRFGLDDGRSRTLEEVGKEFHVTRERIR 398
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ AL KL+H +R +K++ L
Sbjct: 399 QIEAKALRKLRHPSRSRKLKDYL 421
>gi|427701550|ref|YP_007044772.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
gi|427344718|gb|AFY27431.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
Length = 335
Score = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 103/319 (32%), Positives = 185/319 (57%), Gaps = 12/319 (3%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE-PSMEQLAASLR 249
+ L+ Y++ + LL+H + + L ++++ + L++ + L R G E PS E LAA
Sbjct: 25 DSLRSYLRDIGRVPLLSHEQEITLGRQVQELMVLEELREELTLRSGGEEPSPELLAAEAG 84
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
++ L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKF
Sbjct: 85 LTPALLRKRLHAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKF 144
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPS 368
D ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+
Sbjct: 145 DPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPT 204
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHG 428
+ +A + + +++V++ + SL+ + GE + P
Sbjct: 205 LSELALAVELPEEEVKDLLCRARQPVSLETKVG------DGEDTELLDLLAGDDLLPADL 258
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLV 487
VD LK ++ L + L E + ++++ YG+D +E ++ I++ +G+SR++ R +
Sbjct: 259 VDGECLKGDLRAL-LEQLPELQGRVLKMRYGIDGEEPMSLTGIARTLGMSRDKTRNLERR 317
Query: 488 ALEKLKHAARKKKMEAMLV 506
ALE ++H +R +EA LV
Sbjct: 318 ALEGIRHHSR--SLEAYLV 334
>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: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q +L A++KL+ SN+RLV+SIA+++ N G M DL+Q G +GL++ +EKF+ KGF
Sbjct: 141 QKVLENDEEAKQKLIESNLRLVVSIAKKHTNRGLKMLDLIQEGNMGLMKAVEKFEYEKGF 200
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAE 374
K STY WWIRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G + + +A+
Sbjct: 201 KFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKIKKESRIILQETGKEATAEELAK 260
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L + KV++ E SL+ + G+ ++ D++ NP+ L
Sbjct: 261 KLEIPVDKVKSILEMNQDPISLETPVGSEEDSELGD----FVEDDKF-LNPYDATTRVLL 315
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
K++++ ++ TL ERE ++R YGLD T E++ K ++RER+RQ+ + AL KL+
Sbjct: 316 KEQLDG-VLKTLSEREEMVLRYRYGLDDGSPKTLEEVGKIFNVTRERIRQIEVKALRKLR 374
Query: 494 HAARKKKME 502
H +R+KK+E
Sbjct: 375 HPSRRKKLE 383
>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: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 213
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 273
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
AE L M+ ++VR + + SL+ + G+ + + D +E + D+
Sbjct: 274 AEELGMTPEQVREVLTQVPRSVSLELKV--------GQDKDTELMD-LLETDTQSPEDEL 324
Query: 433 ---ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
AL++++ + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ A
Sbjct: 325 MREALQNDMQE-ILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKA 383
Query: 489 LEKL 492
L+KL
Sbjct: 384 LQKL 387
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 107/274 (39%), Positives = 164/274 (59%), Gaps = 29/274 (10%)
Query: 250 ISRPELQSILMECSLAREKL----------VMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
I R EL S E LA++ L +N+RLV+SIA+RY G DL+Q G
Sbjct: 151 IGRVELLSHDDEIKLAKKILEGDEAAKKELAAANLRLVVSIAKRYVGRGMLFLDLIQEGN 210
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R +L
Sbjct: 211 MGLIKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTRIQRL 270
Query: 359 RLEEKGVTPSVDRIAEYLN-MSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYI 416
++E G P+ + IAE ++ M+ +KVR I K+ SL+ P SL GE S++
Sbjct: 271 LIQELGREPTAEEIAERIDGMTPEKVRE----IQKI-SLE----PVSLETPIGEEDDSHL 321
Query: 417 ADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDIS 471
D +E+ DD+A LKDE+N+ +++ L +RE +++RL +GLD T E++
Sbjct: 322 GD-FIEDEGVMSPDDYAANELLKDELNE-VLLELTDREEKVLRLRFGLDDGRTRTLEEVG 379
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
K ++RER+RQ+ AL KLKH +R K+++ L
Sbjct: 380 KEFSVTRERIRQIEAKALRKLKHPSRSKRLKDFL 413
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 388 AKRELVRANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + + KV
Sbjct: 448 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEMGKEPSPEEIAEKMEIPIDKV 507
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R +V + +E SL GE S++ D ++ + P D +L ++ K
Sbjct: 508 R-------RVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKKFSIPSEAAIDLSLAEQTRK 559
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
I+ TL RE +++R+ +G+ +K T E++ K ++RER+RQ+ AL KL+H R K
Sbjct: 560 -ILATLTPREEKVLRMRFGIGEKSDHTLEEVGKDFTVTRERIRQIEAKALRKLRHPTRSK 618
Query: 500 KMEAML 505
K++ +
Sbjct: 619 KLKTFI 624
>gi|227529171|ref|ZP_03959220.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
vaginalis ATCC 49540]
gi|227350896|gb|EEJ41187.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
vaginalis ATCC 49540]
Length = 380
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 169/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +LRI + + + A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLSADEEVALALRIEQGDEE--------AKQELAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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 (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 93/257 (36%), Positives = 150/257 (58%), Gaps = 18/257 (7%)
Query: 261 ECSLAREK----------LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
E LAR K LV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD
Sbjct: 157 ETDLARRKSEGDAEAGRQLVEANLRLVVSIAKRYTGRGMGFLDLVQEGNLGLMKAVEKFD 216
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSV 369
SKG+++STY WW++Q ++R+L + SRT+RLP H+ E + IR A+ L + G PS
Sbjct: 217 YSKGYRLSTYATWWVKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVRLGREPST 276
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ IAE + M +K+V +A G SL+ + G ++AD+ +
Sbjct: 277 EEIAEEVGMPEKRVTELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKA 331
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVA 488
+ + L++E++ + + L RERE+I L +GL+ LT E++ +R ++RER+RQ+ A
Sbjct: 332 ESFLLREEIDAM-LQGLNPREREVIILRFGLETGHPLTLEEVGRRFNVTRERIRQIETAA 390
Query: 489 LEKLKHAARKKKMEAML 505
L KL++ ++ +K+ L
Sbjct: 391 LRKLRNPSKSRKIRDFL 407
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 108/307 (35%), Positives = 175/307 (57%), Gaps = 29/307 (9%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL V L++ ++ GL + KL + L +P + R
Sbjct: 94 FRQYLREIGRVPLLNAVLEVELAQAVEAGL-FAEEKLTFQTHL--KPQL----------R 140
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL +++E A+ +L+ +N+RLV+SIA+RY G + DLVQ G +GL+R +EKFD +
Sbjct: 141 RELAILVLEGQAAKRRLIEANLRLVVSIAKRYLGRGMSILDLVQEGNLGLIRAVEKFDYT 200
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E GV P+ D
Sbjct: 201 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELMNRVVRLQRRLLQENGVEPTPDD 260
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWH 427
IAE L + A E + +V L +E SL+ GE + D +E+ +P
Sbjct: 261 IAEVLGV-------AVERVVEVLRLAQEPV-SLHAPVGEEDDVALGD-LIEDADAVSPAD 311
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++ ++ L + TLGERE+ +++L YGL D + T E+I + G++RER+RQ+
Sbjct: 312 SVAVVMLREHLDAL-LSTLGEREKRVVQLRYGLTDGQPHTLEEIGRTFGVTRERIRQIEA 370
Query: 487 VALEKLK 493
L KL+
Sbjct: 371 KTLAKLR 377
>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 = 6e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 139 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 198
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 258
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 259 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 310
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 311 -VLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 369
Query: 500 KMEAML 505
K+ L
Sbjct: 370 KLRDYL 375
>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 (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 92/253 (36%), Positives = 153/253 (60%), Gaps = 14/253 (5%)
Query: 258 ILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKI 317
IL LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK
Sbjct: 135 ILEGDELAKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDHTKGFKF 194
Query: 318 STYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL 376
STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +
Sbjct: 195 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGREPTPEEIGAEM 254
Query: 377 NMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW---A 433
++ +KVR+ + + +E SL GE S++ D +E++ +D+ A
Sbjct: 255 DLPTEKVRD-------ILKIAQEPV-SLETPIGEEDDSHLGDF-IEDDGALSPEDFTASA 305
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 492
L E + ++ TL +RE ++RL +GLD + T E + K G++RER+RQ+ AL KL
Sbjct: 306 LLREQLEDVLDTLTDREENVLRLRFGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKL 365
Query: 493 KHAARKKKMEAML 505
+H +R K+++ L
Sbjct: 366 RHPSRSKQLKDFL 378
>gi|443311220|ref|ZP_21040852.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442778750|gb|ELR89011.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 383
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 176/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+K+++ + +D+ + L +L + + AA+ ++ +
Sbjct: 75 AFFKEMARYPLLKADEEVELAKRVQFLVEVDNLQESLSSKLNRRATQAETAAAFGLTERQ 134
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 135 LEQKLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVQFLDLIQEGAMGLNRATEKFDPDKG 194
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ +++K + + +A
Sbjct: 195 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQREIKQKLHRNATENELA 254
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
+ L+ + +++R + K SL+ G +T + ++ +P +++
Sbjct: 255 QALDTTPEQLRQLQQLRRKSLSLNHRV-----GKEEDTELVDLLEDEDGQSPEQQMNETM 309
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ ++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 310 MRQEIWDVLADVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQIQSKAMRKL 369
Query: 493 KHAARKKKMEAMLV 506
+ K+++ LV
Sbjct: 370 RRPQIAKRLKGWLV 383
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 503 AMLV 506
V
Sbjct: 413 DFKV 416
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 178 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 237
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 238 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 297
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 298 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 351
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 352 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 411
Query: 503 AMLV 506
V
Sbjct: 412 DFKV 415
>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 = 6e-36, Method: Compositional matrix adjust.
Identities = 105/298 (35%), Positives = 165/298 (55%), Gaps = 16/298 (5%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+Q+ + ++K + LLT E +RL+ +++ ++L L++R E S+E + L
Sbjct: 7 LQDAVGRFLKTIGRYSLLTAEEELRLAHQVQRMVTL------LEQRQPHE-SVEGWSQRL 59
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
I ELQ IL + A++++V N+RLV+SIA+RY N G DL+Q G IGL R +EK
Sbjct: 60 GIPLAELQQILRQGEAAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGLTRAVEK 119
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTP 367
FD ++G+K STY WWIRQ V+R + R +RLP H++E++ ++ L E+G P
Sbjct: 120 FDPTRGYKFSTYATWWIRQSVNRGIQNKGRMIRLPAHMYEKVSQVKRRYRELSAERGSRP 179
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ + + L++ N E I + + R + G +I D +N+P
Sbjct: 180 QAEEVFDSLDIGD----NYRELITRHMAEMRSLNVGVGDEDGTELQHFIPDE--DNDPVE 233
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV 484
+ A ++EV L + L ERER++I YGLD LT +I + IGLSRERVRQ+
Sbjct: 234 HLTQLARREEVRAL-VGQLSERERQVIVARYGLDGSRGLTLREIGEHIGLSRERVRQI 290
>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 (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 153/251 (60%), Gaps = 16/251 (6%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 367 EADAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 426
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ ++M
Sbjct: 427 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLIQELGREPTPEEIADKMDMP 486
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALK 435
KVR KV + +E SL GE S++ D +E+ NP + + L
Sbjct: 487 VDKVR-------KVLKIAKEPI-SLETPVGEEEDSHLGDF-IEDKKVINPAEAIVNLNLA 537
Query: 436 DEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKH 494
++ + ++ TL RE +++R+ +G+ +E T E++ + ++RER+RQ+ AL KL+H
Sbjct: 538 EQTRR-VLSTLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALRKLRH 596
Query: 495 AARKKKMEAML 505
+R K++A +
Sbjct: 597 PSRSNKLKAFV 607
>gi|186682180|ref|YP_001865376.1| SigH/RpoD family RNA polymerase sigma factor [Nostoc punctiforme
PCC 73102]
gi|186464632|gb|ACC80433.1| RNA polymerase, sigma 70 subunit SigH, RpoD family [Nostoc
punctiforme PCC 73102]
Length = 321
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 92/294 (31%), Positives = 169/294 (57%), Gaps = 9/294 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT + + +++++ +++ +L L P++ + A +++S
Sbjct: 22 VRAYLKEIGRIPLLTQEQEIIFAQEVQQLMTILAESEKLTIELKRTPTLSEWANQMQLSE 81
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL L + A+ K++ +N+RLV+SIA++Y ++ DL+Q G +GL RG+EKF+ +
Sbjct: 82 QELLQQLNQGKKAKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPA 141
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
G++ STY YWWIRQG++RA+ + R +RLP H++E+L I+ + L + G P+
Sbjct: 142 LGYRFSTYAYWWIRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTE 201
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L++ ++R + SLD ++ I D + +N + + +
Sbjct: 202 IANALSLKPSQIREFLLLATRTISLD----IRVSSEKDLRLQDLIEDYKYSSNSY--ITE 255
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+L EVN L + L +++EI+ L++GL D E L+ + I +R+G+SRERVRQ+
Sbjct: 256 ESLNQEVNSL-LSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQI 308
>gi|227544906|ref|ZP_03974955.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri CF48-3A]
gi|338204350|ref|YP_004650495.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri SD2112]
gi|227185118|gb|EEI65189.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri CF48-3A]
gi|336449590|gb|AEI58205.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri SD2112]
Length = 380
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIEKGD--------EVAKQELAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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 = 6e-36, Method: Compositional matrix adjust.
Identities = 91/242 (37%), Positives = 147/242 (60%), Gaps = 7/242 (2%)
Query: 269 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 328
+++SN+RLV++IA+RY+NMG ++ DL+Q G +GL+ G+EKFD S+GFK STY YWWI Q
Sbjct: 1 MILSNLRLVVAIARRYENMGVEIGDLIQEGTLGLIHGLEKFDVSRGFKFSTYAYWWIFQA 60
Query: 329 VSRALVENSRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNAT 387
+ R+L + + +R P HL E + I + R ++++ V SV+ + + L + + ++ A
Sbjct: 61 MIRSLDKRGKCVRYPFHLCEAIRKINQLRNRQVDDRPV--SVETMMQVLKLPRARIEIAL 118
Query: 388 EAIG-KVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+A ++ SLDR G+ +I D VEN PW + A+K+E+++L+ L
Sbjct: 119 QASNYRLTSLDRHVANKRCFEEGDPLEDFIVDQNVENQPWLMAERDAVKEELDRLLESKL 178
Query: 447 GEREREIIRLYYGL---DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
RERE+IR +GL L+ +I + G+SRERVRQ+ A+ KL+ + ME
Sbjct: 179 DAREREVIRKRFGLHPNQTSPLSRHEIGRSCGISRERVRQLENDAMAKLRACKSRLSMEF 238
Query: 504 ML 505
+L
Sbjct: 239 LL 240
>gi|254415890|ref|ZP_05029647.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196177317|gb|EDX72324.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 352
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 95/312 (30%), Positives = 177/312 (56%), Gaps = 13/312 (4%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + K+++ + L + K L E L EP+M++ A
Sbjct: 38 PTFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMPLLEAKDALAETLEREPTMQEWA 97
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+ + L+ I+ + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 98 DHVDLEESALKKIINQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERG 157
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD ++G+K STY YWWIRQ ++RA+ + +R +RLP H+ E+L I+ + L ++ G
Sbjct: 158 VEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQRLG 217
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN- 423
+ I + L + ++R + S+ R+ SL+ G+ + ++D ++
Sbjct: 218 RNATPTEIGQELELEPAQIR-------EYLSIARQPV-SLDVRVGDNQDTELSDLLEDSG 269
Query: 424 -NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P H +L+ +++ L + L ++RE++ L +GL D L+ + +R+ LSRERV
Sbjct: 270 PTPVHYTTQESLRQDLDNL-LAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERV 328
Query: 482 RQVGLVALEKLK 493
RQ+ AL +L+
Sbjct: 329 RQLEHQALAQLR 340
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 177/303 (58%), Gaps = 20/303 (6%)
Query: 208 HAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLARE 267
H+E V++ K I L+L K+ E + E E A ++ EL++IL A++
Sbjct: 108 HSEAVKIGK-IAQQLNLTPKKV---ESIITE-GKETWANLAQVKLSELETILANGIKAKQ 162
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
K++ +N+RLV+SIA++Y N G ++ DL+Q G +GL + +EKFD +KG+ STY YWWIRQ
Sbjct: 163 KMINANLRLVVSIAKKYQNRGLELLDLIQEGTLGLEKAVEKFDHTKGYHFSTYAYWWIRQ 222
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +RT+RLP H+ ERL ++ + +L +K G +VD IA+ ++M+ +R
Sbjct: 223 GMTRAIATQARTIRLPIHITERLNQLKKVQRQLSQKLGRIATVDEIAKEMDMTSLDLRQF 282
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN---NPWHGVDDWALKDEVNKLII 443
I + SL+ + GE +++ + + +E P + +++ ++ ++
Sbjct: 283 LNQIPRSISLEMKV--------GEDYNTELVE-LIETESATPEENLMRVSMQKDLRSMLS 333
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+ L ERE++I+RL YG + + + D + + LSRERVRQ+ A++KL+ +KK +
Sbjct: 334 L-LNEREQKILRLRYGFENGKIYSLSDTASIMNLSRERVRQIQAKAIQKLRQPNQKKSLR 392
Query: 503 AML 505
L
Sbjct: 393 DYL 395
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 97/269 (36%), Positives = 155/269 (57%), Gaps = 10/269 (3%)
Query: 241 MEQLAA--SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGG 298
ME L + SLR +Q +E A+ +L N+RLV+SIA++Y N G DL+Q G
Sbjct: 277 METLESPRSLRARCVAMQRQYIEYEAAKRQLSSGNLRLVVSIAKKYRNRGLSFLDLIQEG 336
Query: 299 LIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKL 358
GL+R ++K++ +GFK STY WWIRQ ++RA+ + +RT+R+P H+ + L +RN +
Sbjct: 337 NTGLMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLSKLRNVQK 396
Query: 359 R-LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA 417
+ L+E G P+ + + +++ ++V+ + SLDR S + GE +I
Sbjct: 397 KLLQELGREPTTEEVTALVDLPLEEVKRVLDIGRHPVSLDRPVGDSEDSSFGE----FIE 452
Query: 418 DNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGL 476
D +NP + L++ ++ L + TL REREIIRL YGL D T E++ + +
Sbjct: 453 DT-ASDNPVLCATNGILRERIDGL-LKTLTWREREIIRLRYGLCDGYTYTLEEVGRIFKV 510
Query: 477 SRERVRQVGLVALEKLKHAARKKKMEAML 505
+RERVRQ+ A+ KL+H R K++E L
Sbjct: 511 TRERVRQIEAKAVRKLQHPVRSKQLEGFL 539
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 503 AMLV 506
V
Sbjct: 413 DFKV 416
>gi|407961401|dbj|BAM54641.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 328
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + L K+++ ++L +HK L +RLG EPS + A
Sbjct: 13 PTFTADMVRSYLHEIGRVPLLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+ +S +L L + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 EAADLSVTKLHRYLGQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +KG+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L ++ G
Sbjct: 133 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRELSQQLG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA----DNR 420
+ + +A+ L + ++R + SL R+ SL+ G+ + ++ D
Sbjct: 193 RSATPAEVAKALEIDPSQIR-------EYLSLSRQPI-SLDVRVGDNQDTELSELLEDEG 244
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
V + + + +++ ++ L + L +++ ++ + +GL D + L+ I + + +SRE
Sbjct: 245 VSPDAY--ITQESMRQDLQNL-LAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRE 301
Query: 480 RVRQVGLVALEKLK 493
RVRQ+ AL +LK
Sbjct: 302 RVRQLENQALAQLK 315
>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 (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 93/275 (33%), Positives = 162/275 (58%), Gaps = 21/275 (7%)
Query: 243 QLAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLV 295
++A + S PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+
Sbjct: 411 EIAQASGTSLPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLI 470
Query: 296 QGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIR 354
Q G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 471 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVR 530
Query: 355 NAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS 414
++ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S
Sbjct: 531 TSRQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDS 582
Query: 415 YIADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDI 470
++ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 583 HLGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEV 641
Query: 471 SKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 642 GQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 676
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 94/266 (35%), Positives = 157/266 (59%), Gaps = 14/266 (5%)
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA LR + + E A+++L+ +N+RLV+SIA+RY N G DL+Q G IGL++
Sbjct: 300 AAELRRTLEIITQAHQEAETAKKELIEANLRLVVSIAKRYTNRGLQFLDLIQEGNIGLMK 359
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
++KF+ +G+K STY WW+RQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E
Sbjct: 360 AVDKFEYRRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETINKLIRTSRQMVQEL 419
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G PS + +A+ L + KVR KV + +E SL GE S++ D V+
Sbjct: 420 GREPSNEELAKRLQLPVSKVR-------KVLRVAQEPI-SLETPIGEEEESHLGDFIVDQ 471
Query: 424 N---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
N P V + L+++ + ++ TL RE +II++ +GL D T E++ + ++RE
Sbjct: 472 NGISPSDAVINLNLREQTAQ-VLKTLTPREEKIIKMRFGLEDGSEHTLEEVGQNFAVTRE 530
Query: 480 RVRQVGLVALEKLKHAARKKKMEAML 505
R+RQ+ AL KL+H +R ++ A L
Sbjct: 531 RIRQIEAKALRKLRHPSRSHRLRAFL 556
>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 = 6e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 132 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 252 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 304 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 362
Query: 500 KMEAML 505
K+ L
Sbjct: 363 KLRDYL 368
>gi|427720859|ref|YP_007068853.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
7507]
gi|427353295|gb|AFY36019.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
7507]
Length = 327
Score = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 174/306 (56%), Gaps = 15/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L D K L ++L EPS+E+ A +
Sbjct: 20 VRTYLREIGRVPLLTREQEIIFGKQVQQMMTLLDAKEDLAKKLHREPSLEEWANLVHQPE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 TEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +P+
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP---WHG 428
IA+ L + ++R + SLD G+ + + + ++ P ++
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVRV--------GDNQDTELQEMLEDDGPSPEYYT 251
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
++ L+ ++N L + L ++RE++ L +GL D ++ + +R+ LSRERVRQ+
Sbjct: 252 TQEF-LRQDLNTL-LAELTPQQREVVALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQ 309
Query: 488 ALEKLK 493
AL L+
Sbjct: 310 ALAHLR 315
>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 = 158 bits (400), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 102/311 (32%), Positives = 170/311 (54%), Gaps = 27/311 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG + +L
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTKKRLG------------EARKRDL 72
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q+++ + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 73 QAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGF 132
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K + + G + + +AE
Sbjct: 133 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAE 192
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+ +K+ + E SLD +P T + +E++ ++ +
Sbjct: 193 ESGIPVEKINDLLEHSRDPVSLD---------MPVGTDEEAPLGDFIEDSEAMSAENAVI 243
Query: 435 KDEVN---KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+ ++ + ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ+ +
Sbjct: 244 SELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMA 303
Query: 491 KLKHAARKKKM 501
KL++ R ++
Sbjct: 304 KLRNGERADRL 314
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 503 AMLV 506
V
Sbjct: 414 DFKV 417
>gi|403384152|ref|ZP_10926209.1| RNA polymerase sigma factor RpoD [Kurthia sp. JC30]
Length = 375
Score = 158 bits (399), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 102/297 (34%), Positives = 175/297 (58%), Gaps = 27/297 (9%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + RI + + + AR++L +N+
Sbjct: 96 VPPGVKINDPVRMYLKEIGRVDLLSAAEEIALAERIEQGDEE--------ARKRLAEANL 147
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 148 RLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIA 207
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKV 393
+ +RT+R+P H+ E + LIR + L++ G P+ + I E ++++ +KVR ++
Sbjct: 208 DQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIGEEMDLTPEKVR-------EI 260
Query: 394 FSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGER 449
+ +E SL GE S++ D +E++ D A LK+++ ++ TL +R
Sbjct: 261 LKIAQEPV-SLETPIGEEDDSHLGDF-IEDSEAQSPADHAAYELLKEQLED-VLDTLTDR 317
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 318 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 374
>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 = 162/274 (59%), Gaps = 21/274 (7%)
Query: 244 LAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+A+ ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 402 IASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 461
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 462 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 521
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ L E+G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 522 SRQFLHEQGREPTPEEMAERLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 573
Query: 416 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 471
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 574 LGDFIEDKNAIIPVDAAIQSNLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 632
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 633 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 666
>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 = 6e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 503 AMLV 506
V
Sbjct: 414 DFKV 417
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 174/295 (58%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RL
Sbjct: 75 SGVKINDPVRMYLKEIGRVSLLTADEEVALALKIEQGDQE--------AKQRLAEANLRL 126
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 127 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 186
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 187 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 239
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGERER 451
+ +E SL GE S++ D +E+ +D A LK+++ ++ TL +RE
Sbjct: 240 IAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPEDHASYELLKEQLES-VLDTLTDREE 296
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 297 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 351
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 179 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 238
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 239 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 298
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 299 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 352
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 353 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 412
Query: 503 AMLV 506
V
Sbjct: 413 DFKV 416
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 161/270 (59%), Gaps = 11/270 (4%)
Query: 231 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
LKERL + A + S EL+ I + A+E ++ +N+RLV+S+A++Y N G +
Sbjct: 145 LKERLSV--GKHRWAEVVNCSVKELERIQRDGIRAKEHMIKANLRLVVSVAKKYQNRGLE 202
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ DL+Q G +GL R +EKFD +KG++ STY YWWIRQG++RA+ SRT+RLP H+ E+L
Sbjct: 203 LLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKL 262
Query: 351 GLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
I+ A+ ++ +EKG TP ++ +A+ L+M+ ++R + + SL+ + + G
Sbjct: 263 NKIKKAQRKISQEKGHTPRIEDLAQELDMTAGQIREVLLRVPRSVSLEIKVGKEKDTELG 322
Query: 410 ETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWE 468
+ + A +P + +L+ ++ L + L RERE+I++ +G E +
Sbjct: 323 DLLETESA------SPEETLMRESLQKDLQYL-LSELTSREREVIQMRFGFGGEKPFSLA 375
Query: 469 DISKRIGLSRERVRQVGLVALEKLKHAARK 498
+I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 376 EIGRCLELSRERVRQIEAKALQKLRQPRRR 405
>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 = 7e-36, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 153/251 (60%), Gaps = 16/251 (6%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 367 EADAAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 426
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + L+R ++ ++E G P+ + IA+ ++M
Sbjct: 427 ATWWIRQAITRAIADQARTIRIPVHMIETINKLVRTSRYLIQELGREPTPEEIADKMDMP 486
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALK 435
KVR KV + +E SL GE S++ D +E+ NP + + L
Sbjct: 487 VDKVR-------KVLKIAKEPI-SLETPVGEEEDSHLGDF-IEDKKVINPAEAIVNLNLA 537
Query: 436 DEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKH 494
++ + ++ TL RE +++R+ +G+ +E T E++ + ++RER+RQ+ AL KL+H
Sbjct: 538 EQTRR-VLSTLTPREEKVLRMRFGIGEESDHTLEEVGQDFNVTRERIRQIEAKALRKLRH 596
Query: 495 AARKKKMEAML 505
+R K++A +
Sbjct: 597 PSRSNKLKAFV 607
>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 = 7e-36, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 149/244 (61%), Gaps = 8/244 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 178 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 237
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 238 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 297
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 298 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 351
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 352 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 411
Query: 503 AMLV 506
V
Sbjct: 412 DFKV 415
>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 (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 95/246 (38%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+E+L+ +N+RLV+SIA+RY G DLVQ G +GL++G+EKFD +KG+K+STY WW
Sbjct: 141 AKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIKGVEKFDYTKGYKLSTYATWW 200
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
IRQ V+RAL + +RT+R+P H+ E + + + +L E G PSV ++ L+MS+ KV
Sbjct: 201 IRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLELGYEPSVAELSAALDMSEDKV 260
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
++ + RE SL GE S + D + N P V+ L++ ++
Sbjct: 261 M-------EIMQIAREP-ASLETPIGEEDDSNLGDFVADGNVVTPEGNVESVMLREHIDA 312
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + L ERER++I L +GL D T E++ K ++RER+RQ+ AL KL++ R K
Sbjct: 313 L-LGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEAKALRKLRNPVRSK 371
Query: 500 KMEAML 505
++ L
Sbjct: 372 RIRDFL 377
>gi|406914403|gb|EKD53587.1| hypothetical protein ACD_61C00009G0004 [uncultured bacterium]
Length = 367
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++ L SN+RLV+SIA++Y G DL+Q G GL+R +EK+D +KGFK STY WW
Sbjct: 130 AKDMLTKSNLRLVVSIAKKYMGRGMSFLDLIQEGNKGLIRAVEKYDWTKGFKFSTYATWW 189
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + +++ G P+ + +AE L + +KV
Sbjct: 190 IRQAITRAIADQARTIRIPVHMVETINKLIRTQRKLMQDLGREPTDEEVAEELETTPEKV 249
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R + K SL+ + L G+ +I D R + P+ + + + + +
Sbjct: 250 REILKIAQKTTSLETPIGDDEDSLLGD----FIPDER-QATPYEATSRQLMHENLEE-AL 303
Query: 444 VTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
+L ERE +++R+ +GLD + LT E++ K G++RER+RQ+ AL KL+H +R++K++
Sbjct: 304 GSLTERESKVLRMRFGLDGSKPLTLEEVGKVFGVTRERIRQIESKALRKLRHPSRRRKLQ 363
Query: 503 AML 505
L
Sbjct: 364 DYL 366
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY+N G DL+Q G IGL++ +EKFD KGFK STY WW
Sbjct: 365 AKDRLTTANLRLVVSIAKRYNNRGLHFFDLIQEGNIGLIKAVEKFDYHKGFKFSTYATWW 424
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R+L + +RT+R+P H+ E++ + R +K L+E G P+ + IAE L + KV
Sbjct: 425 IRQAITRSLSDQARTIRVPVHMIEQINKVSRESKSLLQELGREPTDEEIAERLGWNALKV 484
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
++ + SL+ + L G+ +I D VE NP + L+++V ++
Sbjct: 485 KSVKNVSREPISLETPIGEEDDSLLGD----FIEDKDVE-NPANQTAYAQLQEDVAD-VL 538
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE+E++++ +GLD LT E++ ++RER+RQ+ AL +L+H R +K++
Sbjct: 539 KTLPPREQEVLKMRFGLDDGYSLTLEEVGLYFNITRERIRQIEAKALRRLRHPKRSRKLK 598
Query: 503 AML 505
L
Sbjct: 599 DYL 601
>gi|423332763|ref|ZP_17310545.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri ATCC
53608]
gi|337727881|emb|CCC02969.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri ATCC
53608]
Length = 380
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIEKGD--------EVAKQELAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 97/285 (34%), Positives = 165/285 (57%), Gaps = 13/285 (4%)
Query: 224 LDDHKLRLKER-LGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQ 282
L+ K +LK+R L S+E +R+ LQ + + A+ ++V SN+RLV+SIA+
Sbjct: 266 LNAAKRKLKKRELAAGRSLEDFKKDVRM----LQRWMDKSQEAKREMVESNLRLVISIAK 321
Query: 283 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 342
+Y N G DL+Q G +GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+
Sbjct: 322 KYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRI 381
Query: 343 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 401
P H+ E + ++R AK + E G PS + +A L ++ ++VR + SL E
Sbjct: 382 PVHMIETINKVLRGAKKLMMETGREPSPEELANELGITAERVREIYKIAQHPISLQAEV- 440
Query: 402 PSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-L 460
G GE+ ++ ++P LKD++N+ ++ TL +RER+++ +G L
Sbjct: 441 ----GDGGESQFGDFLEDTGADSPAEATGYSILKDKMNE-VLATLTDRERKVLIQRFGLL 495
Query: 461 DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
D + T E++ ++RER+RQ+ AL K++H R K+++A L
Sbjct: 496 DGKPKTLEEVGVEFNVTRERIRQIEAKALRKMRHPTRSKQLKAFL 540
>gi|219130701|ref|XP_002185497.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217403028|gb|EEC42984.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 329
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 172/316 (54%), Gaps = 12/316 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR--I 250
++ Y+K + + ELL E + L ++++ + + + +L+ L P+ ++ A ++ +
Sbjct: 3 IRSYIKTMCNHELLNKNEEIILGREVQVLIQYEATREQLEAELLRPPTYQEWATKIQPDM 62
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
P+L+ + A+ L SN+RLV+SIA+RY + G DL Q G++GL R EKFD
Sbjct: 63 MVPDLKKQIRRSLRAKAALTESNIRLVVSIAKRYQHRGLSFQDLAQEGILGLTRACEKFD 122
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSV 369
+GF+ STY WWI+Q + RA+ + RT+RLP H+H+++ +R + L+ E G +
Sbjct: 123 PERGFRFSTYASWWIKQSIMRAIADQGRTIRLPVHIHDQINALRKVERELKAELGRDARL 182
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN-----GLPGETHHSYIAD--NRVE 422
+ I E ++ +K+ + S+++E S + GL G + D E
Sbjct: 183 EEITEKSTLTAEKIEFLNRVSQQDVSMEQELRTSKSKGSSAGLGGPDGGLTLGDVMGDPE 242
Query: 423 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERV 481
P LKD++++L I TL RE+ +IR+ +GLD + T E+I +R ++RER+
Sbjct: 243 AQPAEEASYQMLKDDISRL-ICTLNSREQAVIRMRFGLDDGKAKTLEEIGRRFSVTRERI 301
Query: 482 RQVGLVALEKLKHAAR 497
RQ+ AL KL+ R
Sbjct: 302 RQIESRALHKLRQPYR 317
>gi|434396665|ref|YP_007130669.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
gi|428267762|gb|AFZ33703.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Stanieria
cyanosphaera PCC 7437]
Length = 327
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 96/303 (31%), Positives = 174/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LLTH + + K+++ ++L K +L+ +LG E S+++ A + +S
Sbjct: 20 VRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLTKKEKLEHKLGKELSLKEWANQVNLSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG+EK+D +
Sbjct: 80 AELDRAIKQGQRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKYDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G + +
Sbjct: 140 KGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ L + ++R + SLD G +T S + ++ + + +
Sbjct: 200 IAQELELDTAQIREYLNVARQPISLDVRV-----GDNQDTELSELLEDEGTSPDNYATQE 254
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+D ++ ++ L ++RE+I L +GL D + L+ I +R+ LSRERVRQ+ AL
Sbjct: 255 LLRQDLLH--LMADLTPQQREVIALRFGLEDGKELSLAKIGQRMNLSRERVRQLEHQALA 312
Query: 491 KLK 493
+L+
Sbjct: 313 QLR 315
>gi|428300095|ref|YP_007138401.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 6303]
gi|428236639|gb|AFZ02429.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 6303]
Length = 442
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 166/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSIL--------------------MECS--LARE 267
RL LG PSME+ A++ + EL+ IL M+ S ++E
Sbjct: 146 RLASELGHRPSMERWASTAGVDVFELKQILAKGKRRWAEVAKLTVEELEQMQSSGLQSKE 205
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 206 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 265
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ VR
Sbjct: 266 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAVELEMTPTAVREV 325
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L + L
Sbjct: 326 LLRVPRSVSLETKVGKDKDTELGELLETDSV------TPEEMLMRESLQRDLHHL-LSDL 378
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 379 TTRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 431
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 184/313 (58%), Gaps = 28/313 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ +K Y+K + LLT A+ V L+++I+ GL + HK++ + ++L + LR
Sbjct: 206 DPVKDYLKQIGKVSLLTAADEVDLARRIEAGLYAE-HKIKTE--------GDELPSKLR- 255
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
ELQ ++ + L++ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 256 --RELQILVHDGQLSKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 313
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+
Sbjct: 314 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 373
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----P 425
+ +A+ L+M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 374 EELAKELDMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAIVP 424
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
V L+++++K ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+
Sbjct: 425 TDAVSFTLLQEQLHK-VLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQI 483
Query: 485 GLVALEKLKHAAR 497
+ KL+H +R
Sbjct: 484 ESKTMSKLRHPSR 496
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 127/419 (30%), Positives = 212/419 (50%), Gaps = 60/419 (14%)
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-LIQNRLKGYVKGVVSEELLTHAEVVR 213
N + + S++ NG R++ + E L QN +K T A
Sbjct: 61 ----NLLQNVEDAGISVVDANGDPDPRALKATEKLSQNAMKD-----------TSA---- 101
Query: 214 LSKKIKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLV 270
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L
Sbjct: 102 -----PTGVKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGD--------EVAKQQLA 148
Query: 271 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 330
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++
Sbjct: 149 EANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAIT 208
Query: 331 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 389
RA+ + +RT+R+P H+ E + LIR + L++ G P + I ++M +K+RN
Sbjct: 209 RAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKIRN---- 264
Query: 390 IGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLG 447
+ + +E SL GE S++ D + + D A + +L ++ TL
Sbjct: 265 ---ILKIAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLT 320
Query: 448 EREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 321 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>gi|148543974|ref|YP_001271344.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri DSM 20016]
gi|184153369|ref|YP_001841710.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri JCM 1112]
gi|227364887|ref|ZP_03848933.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM2-3]
gi|325682488|ref|ZP_08162005.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM4-1A]
gi|148531008|gb|ABQ83007.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus reuteri DSM
20016]
gi|183224713|dbj|BAG25230.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri JCM
1112]
gi|227070091|gb|EEI08468.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM2-3]
gi|324978327|gb|EGC15277.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM4-1A]
Length = 380
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIEKGD--------EVAKQELAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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 (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 90/261 (34%), Positives = 160/261 (61%), Gaps = 15/261 (5%)
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+S EL+ IL A+++++ +N+RLV+SIA++Y N G D+ DL+Q G +GL + +EKF
Sbjct: 135 LSVDELREILSVGKRAKQQMINANLRLVVSIAKKYQNRGLDLLDLIQEGTLGLEKAVEKF 194
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPS 368
D KG+ STY YWWIRQG++RA+ SR++R+P H+ E+L L++ + +L + G TP
Sbjct: 195 DYRKGYHFSTYSYWWIRQGMTRAIATQSRSIRIPIHITEKLNLLKKTQRQLSQALGRTPK 254
Query: 369 VDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---P 425
+ +AE + M+ ++R+ I + SL+ + GE +++ + + +E + P
Sbjct: 255 AEELAEKMEMTTFELRSFLSQIPRSISLETKV--------GEDYNTELVE-LIETDSATP 305
Query: 426 WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+ +++ +V+ L + TL ERE +I+RL YG D + + D ++ + LSRERVRQ+
Sbjct: 306 EENLMLLSMRQDVSTL-LDTLSEREAKILRLRYGFEDGKTYSLSDTAQMMHLSRERVRQI 364
Query: 485 GLVALEKLKHAARKKKMEAML 505
A++KL+ ++++ L
Sbjct: 365 QAKAIQKLRQPNTRQQLHDYL 385
>gi|18404292|ref|NP_565856.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana]
gi|75173811|sp|Q9LD95.1|SIGF_ARATH RecName: Full=RNA polymerase sigma factor sigF, chloroplastic;
Short=Sigma factor F; Short=Sigma-F; AltName:
Full=Protein SINGLET OXYGEN-LINKED DEATH ACTIVATOR 8;
AltName: Full=RNA polymerase sigma factor sig6;
Short=Atsig6; Short=Sigma factor 6; Flags: Precursor
gi|7209640|dbj|BAA92288.1| SigF [Arabidopsis thaliana]
gi|7688083|emb|CAB89775.1| sigma factor-like protein [Arabidopsis thaliana]
gi|16604647|gb|AAL24116.1| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana]
gi|20197948|gb|AAD31584.2| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana]
gi|20259557|gb|AAM14121.1| putative RNA polymerase sigma-70 factor protein [Arabidopsis
thaliana]
gi|330254238|gb|AEC09332.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana]
Length = 547
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 173/304 (56%), Gaps = 8/304 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 235 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 294
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 295 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 354
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDR 371
G + +TY YWWIRQ + +++ +NSRT+RLP +++ LG + A K ++E PS +
Sbjct: 355 SGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEE 414
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A ++ +S +K+ S+ + + + T D+ +E P V
Sbjct: 415 LAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDT----TFQEITPDSGIE-TPTMSVGK 469
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALE 490
+++ V L+ V L +ER II+L +G+D + + +I + GLS+ERVRQ+ AL
Sbjct: 470 QLMRNHVRNLLNV-LSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALY 528
Query: 491 KLKH 494
+LK
Sbjct: 529 RLKQ 532
>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 = 7e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 147/246 (59%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 158 AKKELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 217
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ I + + S++KV
Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPAEIGKEMGFSEEKV 277
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R + SL+ GE S++ D ++N P LK+++ +
Sbjct: 278 REIQKIAQDPVSLETPI--------GEEEDSHLGDFIEDDNAPAPSEAASYALLKEQLME 329
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 330 -VLNTLTEREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSK 388
Query: 500 KMEAML 505
K++ L
Sbjct: 389 KLKDYL 394
>gi|443321959|ref|ZP_21050996.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442788351|gb|ELR98047.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 353
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 100/307 (32%), Positives = 175/307 (57%), Gaps = 14/307 (4%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI-SRPELQSILMECS 263
LL E + L+ +IK + +++ +L+ L P+ +L +L + S +L ++L +
Sbjct: 55 LLNPEEELTLAYQIKFLIKVEEQTQQLERELRRSPTKAELVTALALNSVGQLDNLLYQGR 114
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD +KG+K STY YW
Sbjct: 115 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAVGLNRATEKFDPNKGYKFSTYAYW 174
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKK 382
WIRQ ++R + ++RT+RLP H+ E+L ++ A+ L+++ P + IA + +S +
Sbjct: 175 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPKEEEIATEMEISPLQ 234
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
+R E L R++ SLN G+ + + D + P + + ++ E++
Sbjct: 235 LRYLLE-------LKRQSL-SLNHRIGKGEDTELVDLLQDTEIQLPEDKISETMMRQEIS 286
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+++ L ERER++I L YGL + T +++ LSRERVRQ+ A+ KL+
Sbjct: 287 EVLAEVLTERERDVISLRYGLTTDQAYTLDEVGGMFNLSRERVRQIQTKAMRKLRRPQVA 346
Query: 499 KKMEAML 505
++++ L
Sbjct: 347 RRLKGWL 353
>gi|427736788|ref|YP_007056332.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427371829|gb|AFY55785.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 327
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 93/307 (30%), Positives = 176/307 (57%), Gaps = 15/307 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ + L + K L ++LG E S+E+ + ++
Sbjct: 20 VRTYLREIGRVPLLTREQEIIFGKQVQKMMKLVEAKEALAKKLGREVSLEEWTQEVGLAE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ ++E A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 TELKKTVLEGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGALGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +K G +P
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPIPSE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNP---WHG 428
IA+ L++ ++R + SLD G+ + + + ++ P ++
Sbjct: 200 IAKELDLEPAQIREYLNMARQPVSLDVRV--------GDNQDTELQEMLEDDGPSPEYYT 251
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
++ L+ ++N L + L ++R+++ L +GL D ++ + +R+ LSRERVRQ+
Sbjct: 252 TQEF-LRQDLNNL-LAELTPQQRQVLALRFGLSDGNEMSLAKVGERLSLSRERVRQLEHQ 309
Query: 488 ALEKLKH 494
AL L+
Sbjct: 310 ALAHLRR 316
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 178/320 (55%), Gaps = 25/320 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT +E V L+ KI+ G KL E E S +
Sbjct: 149 LTGDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGTEAT-QKLEDFEDEKIELSRAEQRRL 207
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+RI + L A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +E
Sbjct: 208 MRIEQVGLD--------AKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 259
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 260 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRD 319
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ + I + MS +VR ++ + +E SL GE S + D +E++
Sbjct: 320 PTPEEIGAEMGMSPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSTA 370
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P D L++++ + ++ L +RER++I+ +GL D T E++ + G++RER+
Sbjct: 371 IAPPDAASDSMLREQLEQ-VLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTRERI 429
Query: 482 RQVGLVALEKLKHAARKKKM 501
RQ+ L KL+H +R ++
Sbjct: 430 RQIESKTLAKLRHPSRSSRL 449
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 103/319 (32%), Positives = 169/319 (52%), Gaps = 22/319 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+ + ++ Y++ + LLT E + L+++++ G + ERL Q
Sbjct: 106 VDDPVRVYLREIGRVNLLTAQEEIMLAQQVERGEQAN-------ERL-------QNGDYT 151
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
+ R +L + E ARE+L+ +N+RLV+SIA++Y G + DL+Q G IGL+R EK
Sbjct: 152 PVERLQLHRWVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEK 211
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTP 367
FD KG+K STY WWIRQ ++R + + SRT+RLP H+ E + + R+++ G P
Sbjct: 212 FDYRKGYKFSTYATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRTSNRIQQTTGRDP 271
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ D IA L + +KVR EA + SL+ P + + + +I D + P
Sbjct: 272 TPDEIALELGIPVEKVRRVLEAARQTISLETPIGPEGDSVLAD----FIEDGK-GATPME 326
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
L+++++ + L ERER II+L YGL D T E++ + G++RER+RQ+
Sbjct: 327 SASSHILREQIDS-ALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEA 385
Query: 487 VALEKLKHAARKKKMEAML 505
L KL+H + + L
Sbjct: 386 RVLRKLRHPHYGRGLRGYL 404
>gi|194467797|ref|ZP_03073783.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus
reuteri 100-23]
gi|194452650|gb|EDX41548.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus
reuteri 100-23]
Length = 380
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLTADEEVQLALRIEKGD--------EVAKQELAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>gi|16331222|ref|NP_441950.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|383322965|ref|YP_005383818.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383326134|ref|YP_005386987.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383492018|ref|YP_005409694.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384437286|ref|YP_005652010.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451815378|ref|YP_007451830.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|1001398|dbj|BAA10020.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339274318|dbj|BAK50805.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359272284|dbj|BAL29803.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359275454|dbj|BAL32972.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359278624|dbj|BAL36141.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|451781347|gb|AGF52316.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 345
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 179/314 (57%), Gaps = 17/314 (5%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + L K+++ ++L +HK L +RLG EPS + A
Sbjct: 30 PTFTADMVRSYLHEIGRVPLLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWA 89
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+ +S +L L + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 90 EAADLSVTKLHRYLGQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 149
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +KG+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L ++ G
Sbjct: 150 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRELSQQLG 209
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIA----DNR 420
+ + +A+ L + ++R + SL R+ SL+ G+ + ++ D
Sbjct: 210 RSATPAEVAKALEIDPSQIR-------EYLSLSRQPI-SLDVRVGDNQDTELSELLEDEG 261
Query: 421 VENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
V + + + +++ ++ L + L +++ ++ + +GL D + L+ I + + +SRE
Sbjct: 262 VSPDAY--ITQESMRQDLQNL-LAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRE 318
Query: 480 RVRQVGLVALEKLK 493
RVRQ+ AL +LK
Sbjct: 319 RVRQLENQALAQLK 332
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A +KL+ SN+RLV+SIA+++ N G + DL+Q G IGL++ +EKF+ +KG+K STY WW
Sbjct: 180 ASKKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + RT+R+P H+ E + I + +++ L+E G S + +AE L M K+
Sbjct: 240 IRQAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVDKI 299
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ E + SL+ + G+ ++ D + +P+ + L++E++ ++
Sbjct: 300 KAIQEMNQEPISLETPVGSEEDSELGD----FVEDQKT-TSPYEATNRAILREELDA-VL 353
Query: 444 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL RE +++R YGLD T E++ K ++RER+RQ+ + AL KL+H +RKKK+E
Sbjct: 354 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 413
Query: 503 AMLV 506
V
Sbjct: 414 DFKV 417
>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 = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + +++ +LRI + + + A+++L +N+RL
Sbjct: 92 TGIKINDPVRMYLKEIGRVSLLNAQQEVDLALRIEQGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M+ KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMNTDKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPEEHASYELLKEQLES-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>gi|428305801|ref|YP_007142626.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428247336|gb|AFZ13116.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 373
Score = 158 bits (399), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 180/321 (56%), Gaps = 7/321 (2%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L ++ + + K + LL E V L+ +++ L +++ + RL+ +L +PS ++A S
Sbjct: 58 LSEDTVGAFFKEMARYPLLKAEEEVDLANQVQFILQIEEIEERLEAQLNHKPSKAEIAES 117
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
L ++ +L L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R E
Sbjct: 118 LGMNEKQLDHRLYQSRVAKRKMIRSNLRLVVSIAKRYLNRGVAFLDLIQEGALGLNRAAE 177
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVT 366
KFD KG+K STY YWWIRQ ++R + +SRT+RLP H+ E+L ++ A+ L +E
Sbjct: 178 KFDPDKGYKFSTYAYWWIRQAITRTIANDSRTIRLPIHIVEKLNKLKKAQRNLKQELHRN 237
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P+ +AE L + + +R + + SL+ G ET + ++ +P
Sbjct: 238 PTEVELAEALEIPPEHLRQLLQLRRRSLSLNHRV-----GKGEETELVELLEDSENQSPE 292
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
++D ++ ++ +++ L ERER++I L YGL E T E++ LSRERVRQ+
Sbjct: 293 QQMNDSMMRQDIWEVLDEVLNERERDVICLRYGLASNEPYTLEEVGSLFNLSRERVRQIQ 352
Query: 486 LVALEKLKHAARKKKMEAMLV 506
A+ KL+ ++++ L
Sbjct: 353 SKAMRKLRRPQVARRLKGWLT 373
>gi|148243538|ref|YP_001228695.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147851848|emb|CAK29342.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 370
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 111/345 (32%), Positives = 185/345 (53%), Gaps = 54/345 (15%)
Query: 188 LIQNRLKGYV--KGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
L+Q R + V +G+ S+ H +V RL +L++ +LR +LG +PS Q A
Sbjct: 41 LVQKREQLVVERRGLCSK----HPDVARLE-------ALEEQRLRETSKLGHQPSQSQWA 89
Query: 246 AS----------------------LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQR 283
+ L +S +LQ L+ A+E+++ +N+RLV+++A++
Sbjct: 90 QACGLSAGELRAQVQAGNKAWAELLDMSPGDLQRQLLHGRRAKERMIQANLRLVVAVAKK 149
Query: 284 YDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLP 343
Y + G ++ DLVQ G +GL RG+EK+D ++GF+ STY YWWIRQG++RA+ SRT+RLP
Sbjct: 150 YQHRGMELLDLVQEGTLGLERGVEKYDPTRGFRFSTYAYWWIRQGITRAIATQSRTIRLP 209
Query: 344 NHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFP 402
H+ E+L I+ A+ + + G T ++ +++ L +S++ VR + + SLD
Sbjct: 210 VHITEKLNRIKKAQRDIASRLGRTATLKDLSQELQLSEEVVRQTLMRVPRSVSLDTRVGR 269
Query: 403 SLNGLPGETHHSYI--ADNRVENNPWHGVDDWALKDEVNKLIIVTLGE---REREIIRLY 457
++ G+ + + R+ H DD ++V L E RE +IRL
Sbjct: 270 DMDTELGDLLEDGMPTPEQRLTREKLH--DD----------LLVLLNELSGREARVIRLR 317
Query: 458 YGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
+GLD + T +I K + LSRERVRQ+ AL KL+ R+ ++
Sbjct: 318 FGLDDDTPQTLAEIGKTLDLSRERVRQIESRALHKLRLPERRGRV 362
>gi|449499005|ref|XP_004160694.1| PREDICTED: LOW QUALITY PROTEIN: RNA polymerase sigma factor
sigB-like [Cucumis sativus]
Length = 286
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/287 (35%), Positives = 164/287 (57%), Gaps = 8/287 (2%)
Query: 222 LSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIA 281
L L+ + L ER G EP+ Q AA+ +++ L+ L +L ++K++ SN+RLV+SI
Sbjct: 5 LKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDKMIKSNIRLVISIX 64
Query: 282 QRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLR 341
+ Y G ++ DLVQ G GL+RG EKFD+SKGFK STY +WWI+Q V + L + SRT+R
Sbjct: 65 KNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRTIR 124
Query: 342 LPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREA 400
LP H+ E ++ A+ + L E G P IAE +S K++ SL+++
Sbjct: 125 LPFHMVEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAVLMTPKAPRSLEQKI 184
Query: 401 FPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL 460
+ N P E I+D E + + +K ++ K ++ +L RE+++IR +G+
Sbjct: 185 GINQNLKPSEV----ISDPEAETCEDMLIKQF-MKQDLEK-VLDSLNPREKQVIRWRFGM 238
Query: 461 -DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
D T ++I + +G+SRER+RQ+ A KLK+ R K ++ ++
Sbjct: 239 EDGRMKTLQEIGEIMGVSRERIRQIESCAFRKLKNKKRTKHLQQYVM 285
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 96/289 (33%), Positives = 166/289 (57%), Gaps = 31/289 (10%)
Query: 234 RLGCEPSMEQLAASLRISRPELQSILME----------CSL------------AREKLVM 271
+L PSM++ A SL + PEL+ L C + A+E ++
Sbjct: 125 QLSHRPSMKRWAKSLDMEIPELKEALSRGKASWAQVTGCEVNELEKIQKDGIRAKEHMIK 184
Query: 272 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 331
+N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +KG++ STY YWWIRQG++R
Sbjct: 185 ANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITR 244
Query: 332 ALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAI 390
A+ SRT+RLP H+ E+L I+ A+ ++ +EKG TP ++ ++ L+M+ ++R +
Sbjct: 245 AIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPCIEDLSLELDMTAAQIREVLLRV 304
Query: 391 GKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERE 450
+ SL+ + + G+ + A +P + +L+ ++ +L++ L RE
Sbjct: 305 PRSVSLEIKVGKEKDTELGDLLETESA------SPEETLMRESLQRDL-QLLLSELTSRE 357
Query: 451 REIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RE+I++ +G E + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 358 REVIQMRFGFGGEKPFSLAEIGRCLELSRERVRQIEAKALQKLRQPRRR 406
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 173/301 (57%), Gaps = 27/301 (8%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKL 269
L I G+S+DD ++ LKE +G P + E++ + RI + + + A+ +L
Sbjct: 75 LDLSIPEGISIDDPVRMYLKE-IGKVPLLTAEEEIELAHRIEQGDAE--------AKRRL 125
Query: 270 VMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGV 329
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ +
Sbjct: 126 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAI 185
Query: 330 SRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 388
+RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR
Sbjct: 186 TRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR---- 241
Query: 389 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVT 445
++ + +E SL GE S++ D +++ P LK+++ ++ T
Sbjct: 242 ---EIMKISQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDT 296
Query: 446 LGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++
Sbjct: 297 LTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDY 356
Query: 505 L 505
L
Sbjct: 357 L 357
>gi|366053198|ref|ZP_09450920.1| RNA polymerase sigma factor RpoD [Lactobacillus suebicus KCTC 3549]
Length = 381
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 170/293 (58%), Gaps = 25/293 (8%)
Query: 221 GLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLV 277
G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N+RLV
Sbjct: 105 GVKINDPVRMYLKEIGRVSLLSADEEVALALRIEKGD--------ESAKQELAEANLRLV 156
Query: 278 MSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 337
+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +
Sbjct: 157 VSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQA 216
Query: 338 RTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 396
RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++ +
Sbjct: 217 RTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILKI 269
Query: 397 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGEREREI 453
+E SL GE S++ D + + D A LK+++ ++ TL +RE +
Sbjct: 270 AQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEN-VLDTLTDREENV 327
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 328 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 380
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 104/307 (33%), Positives = 178/307 (57%), Gaps = 31/307 (10%)
Query: 210 EVVRLSKKIKTGLSLDDH-KLRLKERLGCEP--SMEQ---LAASLRISRPELQSILMECS 263
+V L + G+SL+D ++ LKE +G P SME+ LA S+ + +
Sbjct: 86 DVEHLDLSVPEGVSLEDPVRMYLKE-IGKIPLLSMEEEIELAKSMELGSED--------- 135
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
AR++L SN+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY W
Sbjct: 136 -ARKRLAESNLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATW 194
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+E G P+ + IA ++
Sbjct: 195 WIRQAITRAIADQARTIRIPVHMVETINRLVRTSRQLLQELGREPTTEEIAARADL---- 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVN 439
E + ++ + +E SL GE S++ D ++N P L +++
Sbjct: 251 ---PVERVSEIMKMAQEPV-SLETPIGEEEDSHLGDFIQDDNVMVPQDAAAFTLLHEQLM 306
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ +++TL ERE+++++L +GLD T E++ ++ ++RER+RQ+ AL KL+H +R
Sbjct: 307 E-VLLTLTEREQKVLKLRFGLDDGRPRTLEEVGRQFNVTRERIRQIEAKALRKLRHPSRS 365
Query: 499 KKMEAML 505
KK++ L
Sbjct: 366 KKLKDYL 372
>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 = 8e-36, Method: Compositional matrix adjust.
Identities = 88/243 (36%), Positives = 148/243 (60%), Gaps = 8/243 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A ++LV +N+RLV+SIA+RY G DLVQ G IGL++ +EKFD KG+++STY WW
Sbjct: 168 AGKRLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNIGLMKAVEKFDYEKGYRLSTYATWW 227
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKKV 383
++Q ++RAL + +RT+RLP H+ E + IR + L + G PS +AE + M++K+V
Sbjct: 228 VKQAITRALADQARTIRLPVHMVEAVNKIRRTQRDLSVQLGRDPSNRELAEAVGMTEKRV 287
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+ G SL+ + G + ++ADN ++ ++ L++E++ + +
Sbjct: 288 EELIQTSGDTVSLE----TPVGDEDGSSLGDFVADN-AGDSTEDQAENVLLREEIDSM-L 341
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L ERER++I+L +GL+ LT E++ ++ ++RER+RQ+ AL KL++ R KK+
Sbjct: 342 QGLNERERQVIKLRFGLENGRPLTLEEVGRQFNVTRERIRQIETAALRKLRNPVRSKKVR 401
Query: 503 AML 505
L
Sbjct: 402 DFL 404
>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 = 8e-36, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 145 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGFKFSTYATWW 204
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA L+M ++V
Sbjct: 205 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAELDMPVERV 264
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 265 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 316
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 317 -VLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 375
Query: 500 KMEAML 505
K+ L
Sbjct: 376 KLRDYL 381
>gi|335357397|ref|ZP_08549267.1| RNA polymerase sigma factor RpoD [Lactobacillus animalis KCTC 3501]
Length = 323
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 170/294 (57%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N+RL
Sbjct: 46 SGVKINDPVRMYLKEIGRVNLLTADEEVALALRIEEGDEE--------AKQRLAEANLRL 97
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 98 VVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 157
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I +NM +KVR ++
Sbjct: 158 ARTIRIPVHMVETINKLIRIQRQMLQDLGREPIPEEIGAEMNMPTEKVR-------EILK 210
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 211 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQIES-VLDTLTDREEN 268
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 269 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 322
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 95/308 (30%), Positives = 172/308 (55%), Gaps = 36/308 (11%)
Query: 225 DDHKLRLKERLGCEPS-MEQLAASLRISRPELQSILMECSL------------------- 264
++ + +L RLG PS + ++ A ++++ ++ + E +
Sbjct: 288 EEEEFKLCRRLGLHPSELHEIEARMKLATKRIRQVEQETGMDAPDLIELHTRLMKARRQA 347
Query: 265 --AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 348 DRAKAELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYAT 407
Query: 323 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 381
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + +
Sbjct: 408 WWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRSLVQELGREPTPEEIAEKMELPLD 467
Query: 382 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEV 438
KVR KV + +E SL GE S++ D + N P V + L D+
Sbjct: 468 KVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKNAVSPAEVVININLADQT 519
Query: 439 NKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
+ ++ TL RE +++R+ +G+ + T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 520 RR-VLATLTPREEKVLRMRFGIGETSDHTLEEVGQDFSVTRERIRQIEAKALRKLRHPSR 578
Query: 498 KKKMEAML 505
K+++A +
Sbjct: 579 SKRLKAFV 586
>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: 250 ISRPELQSILMECSLA----------REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
I R +L S E SLA R++L +N+RLV+SIA+RY G DL+Q G
Sbjct: 116 IGRVDLLSAEQEISLAERIEKGDDEARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGN 175
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR +
Sbjct: 176 MGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQ 235
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
L++ G P+ + I E ++++ +KVR ++ + +E SL GE S++ D
Sbjct: 236 LLQDLGREPTPEEIGEEMDLTPEKVR-------EILKIAQEPV-SLETPIGEEDDSHLGD 287
Query: 419 NRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKR 473
+E++ D A LK+++ ++ TL +RE ++RL +GLD T E++ K
Sbjct: 288 F-IEDSEAQSPADHAAYELLKEQLED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 345
Query: 474 IGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 346 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 377
>gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
Length = 318
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/311 (32%), Positives = 173/311 (55%), Gaps = 12/311 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR--I 250
+K Y+K + + +LL E + L+++I+ + ++ + L+ +L P+ ++ A ++ +
Sbjct: 3 MKYYMKTMGNHDLLQKNEEIILAREIQILIKWEEVREELEGQLLRPPTYQEWANAIEPGM 62
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+ +++ + A+ L SN+RLV+SIA+RY G +M DL Q G +GL R EKFD
Sbjct: 63 TVTQIKKQIRRSLRAKAALTESNLRLVISIAKRYQGRGLNMQDLCQEGTLGLTRACEKFD 122
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSV 369
+GF+ STY WWI+QG+ RA+ + +RT+RLP H+H++L ++R A+ L+ E G +
Sbjct: 123 PERGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLSIVRKAERDLQNELGRDATK 182
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADN--RVENNPWH 427
+ +A + M K+ A S+++E G G I D + P
Sbjct: 183 EEVAAKVGMKPDKIEFLKRASVGSISMEQEL-----GTSGSERSFTIQDTLGDPDQKPVD 237
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 486
L+D+V +L I TL RE+ +IR+ +GLD + T E+I K+ ++RER+RQ+
Sbjct: 238 MAQYRMLQDDVGRL-ICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTRERIRQIEA 296
Query: 487 VALEKLKHAAR 497
AL KL+ R
Sbjct: 297 RALHKLRQPYR 307
>gi|427418169|ref|ZP_18908352.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425760882|gb|EKV01735.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 319
Score = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 183/311 (58%), Gaps = 18/311 (5%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+K + LLT + V ++T ++++ K L LG EP++E + + ++ EL
Sbjct: 14 YLKEIGRVPLLTPEQEVTFGNAVRTLMTIETIKDGLVGSLGHEPTLEDWSKAANLTIEEL 73
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ + + A+ ++V +N+RLV+S+A++Y ++ DL+Q G IGL RG+EKFD SKG+
Sbjct: 74 KMAVEKGQRAKRQMVEANLRLVVSVAKKYLKRNVEILDLIQEGTIGLQRGVEKFDPSKGY 133
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
+ STY YWWIRQ ++RA+ E SRT+RLP H+HE++ I+ + +L ++ G + + IA
Sbjct: 134 RFSTYAYWWIRQAMTRAIAEKSRTMRLPIHIHEKINKIKKTQRQLAQQLGRSATFQEIAN 193
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L++ +KVR+ S +R+ SL+ G+ + D + + +D+A
Sbjct: 194 ALDLPLEKVRDC-------ISYNRQPL-SLDLRLGDNQDVELGD--LLEDDSQSPEDYAA 243
Query: 435 KDEVNKLI---IVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALE 490
++ ++ + + TL ++++E++ L++GL + +T+ I R+ +SRER RQ+ A +
Sbjct: 244 QELMHSDVADMMSTLTKQQQEVLSLHFGLKGGQKMTFAQIGSRLNVSRERARQIEREAFK 303
Query: 491 KLK---HAARK 498
L+ ++ARK
Sbjct: 304 FLRRKYNSARK 314
>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 = 158 bits (399), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 99/301 (32%), Positives = 178/301 (59%), Gaps = 25/301 (8%)
Query: 219 KTGLSLDDHKLRLKERL-GCEPSMEQLAASLRISRPELQSILM-------ECSLAREKLV 270
K G+SL++ + +L++R E ++++ EL + L+ + LA+ +LV
Sbjct: 296 KLGISLEEAQ-KLEKRFRNAEKKLKKIEQESGFQATELSTALLAIEEGERKAKLAKSELV 354
Query: 271 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 330
+N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++
Sbjct: 355 EANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAIT 414
Query: 331 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 389
RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +++ KVR
Sbjct: 415 RAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMSLPLDKVR----- 469
Query: 390 IGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVT 445
KV + +E SL GE S++ D +E+ +P V L ++ ++ ++ T
Sbjct: 470 --KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSEQTSR-VLST 524
Query: 446 LGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R KK+++
Sbjct: 525 LTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSF 584
Query: 505 L 505
+
Sbjct: 585 V 585
>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 = 8e-36, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 147 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 206
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 207 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPSPEEIGEEMDLLPEKV 266
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 267 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 317
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 318 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 376
Query: 499 KKMEAML 505
K+++ L
Sbjct: 377 KRLKDFL 383
>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 = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N+RL
Sbjct: 91 SGIKINDPVRMYLKEIGRVDLLTADEEVALALRIEQGD--------ESAKQELAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D + + D A LK+++ ++ TL +RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEG-VLDTLTDREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>gi|381200896|ref|ZP_09908028.1| RNA polymerase sigma factor RpoD [Sphingobium yanoikuyae XLDN2-5]
Length = 679
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 437 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 496
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 497 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 556
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 557 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 608
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 609 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 667
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 668 SRSRKMRSFL 677
>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 = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 176/318 (55%), Gaps = 21/318 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ Y++ + LLT E V L++ I+ GL ++ R+ P+ E+L
Sbjct: 87 LRQYLREIGRVRLLTAVEEVELARAIEAGLFAEEALDRVPPAAERRPADERLLG------ 140
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ +A+ +L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +
Sbjct: 141 -DLDRLVVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTLLDLIQEGNVGLIRAVEKFDYA 199
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+GV P+
Sbjct: 200 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVLRVQRGLLQERGVEPTAAE 259
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 428
+ L + ++VR +V L +E SL+ GE + D + +P
Sbjct: 260 VGAVLQLPPERVR-------EVLKLAQEPV-SLHTPVGEEDDVALGDLIEDADAASPPES 311
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLV 487
L++ + ++ TLGERER++++L YGLD T E+I G++RER+RQ+
Sbjct: 312 AAFLLLREHLEA-VLATLGERERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIRQIEAK 370
Query: 488 ALEKLKHAARKKKMEAML 505
L KL+ A ++ L
Sbjct: 371 TLGKLRDHAFADQLRGYL 388
>gi|392989884|ref|YP_006488477.1| RNA polymerase sigma factor RpoD [Enterococcus hirae ATCC 9790]
gi|392337304|gb|AFM71586.1| RNA polymerase sigma factor RpoD [Enterococcus hirae ATCC 9790]
Length = 369
Score = 157 bits (398), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 87/252 (34%), Positives = 154/252 (61%), Gaps = 16/252 (6%)
Query: 261 ECS--LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKIS 318
EC +A+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K S
Sbjct: 339 ECKARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFS 398
Query: 319 TYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLN 377
TY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE +
Sbjct: 399 TYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQENGREPAPEEIAERMQ 458
Query: 378 MSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWAL 434
+ KVR KV + +E SL GE S++ D ++ +P V L
Sbjct: 459 LPLDKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDFIEDKAVISPIEAVIKANL 510
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
++ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+
Sbjct: 511 SEQTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFAVTRERIRQIEAKALRKLR 569
Query: 494 HAARKKKMEAML 505
H +R KK+++ +
Sbjct: 570 HPSRSKKLKSFV 581
>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 = 92/246 (37%), Positives = 155/246 (63%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ KL +N+RLV+SIA+RY G DL+Q G +GLL+ +EKFD KG+K STY WW
Sbjct: 133 AKRKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLLKAVEKFDYRKGYKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ + +S+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRNLLQELGREPTPEEIAKEMGISEDKV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D + + V++ + L++++++
Sbjct: 253 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFVEDPDAKAPVEEASYTLLREQLDE 304
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K
Sbjct: 305 -VLKTLTEREQKVLRLRFGLDDGRARTLEEVGQIFGVTRERIRQIEAKALRKLRHPSRSK 363
Query: 500 KMEAML 505
K++ L
Sbjct: 364 KLKDFL 369
>gi|69249285|ref|ZP_00604924.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70
region 4:Sigma-70 region 1.2 [Enterococcus faecium DO]
gi|257877975|ref|ZP_05657628.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933]
gi|257881238|ref|ZP_05660891.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502]
gi|257884904|ref|ZP_05664557.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501]
gi|257889826|ref|ZP_05669479.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410]
gi|260559026|ref|ZP_05831212.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68]
gi|261207559|ref|ZP_05922244.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6]
gi|289565071|ref|ZP_06445524.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF]
gi|293556716|ref|ZP_06675279.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039]
gi|293563374|ref|ZP_06677823.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162]
gi|293568034|ref|ZP_06679372.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071]
gi|294614871|ref|ZP_06694766.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636]
gi|294618226|ref|ZP_06697809.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679]
gi|314939477|ref|ZP_07846711.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04]
gi|314941108|ref|ZP_07848006.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C]
gi|314949892|ref|ZP_07853194.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082]
gi|314951693|ref|ZP_07854736.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A]
gi|314993960|ref|ZP_07859287.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B]
gi|314996911|ref|ZP_07861912.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01]
gi|383328545|ref|YP_005354429.1| RNA polymerase sigma factor RpoD [Enterococcus faecium Aus0004]
gi|389868271|ref|YP_006375694.1| RNA polymerase sigma-43 factor [Enterococcus faecium DO]
gi|406580165|ref|ZP_11055383.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD4E]
gi|406582348|ref|ZP_11057473.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD3E]
gi|406584629|ref|ZP_11059654.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD2E]
gi|406589486|ref|ZP_11063921.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD1E]
gi|410937789|ref|ZP_11369648.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD5E]
gi|415895001|ref|ZP_11550497.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E4453]
gi|424791669|ref|ZP_18218011.1| RNA polymerase sigma factor RpoD [Enterococcus faecium V689]
gi|424796468|ref|ZP_18222191.1| RNA polymerase sigma factor RpoD [Enterococcus faecium S447]
gi|424821626|ref|ZP_18246653.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R501]
gi|424856308|ref|ZP_18280550.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R499]
gi|424867386|ref|ZP_18291189.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R497]
gi|424949587|ref|ZP_18365193.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R496]
gi|424954619|ref|ZP_18369509.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R494]
gi|424957543|ref|ZP_18372265.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R446]
gi|424960595|ref|ZP_18375097.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1986]
gi|424964787|ref|ZP_18378851.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1190]
gi|424967668|ref|ZP_18381352.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1140]
gi|424972400|ref|ZP_18385741.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1139]
gi|424975693|ref|ZP_18388835.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1137]
gi|424977020|ref|ZP_18390062.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1123]
gi|424981472|ref|ZP_18394205.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV99]
gi|424983417|ref|ZP_18396004.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV69]
gi|424987850|ref|ZP_18400202.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV38]
gi|424991247|ref|ZP_18403414.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV26]
gi|424994875|ref|ZP_18406790.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV168]
gi|424997773|ref|ZP_18409508.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV165]
gi|425001952|ref|ZP_18413424.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV161]
gi|425003970|ref|ZP_18415303.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV102]
gi|425009153|ref|ZP_18420185.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV1]
gi|425010373|ref|ZP_18421329.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E422]
gi|425013357|ref|ZP_18424093.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E417]
gi|425018368|ref|ZP_18428821.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C621]
gi|425019998|ref|ZP_18430327.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C497]
gi|425025859|ref|ZP_18434721.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C1904]
gi|425036841|ref|ZP_18441556.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 514]
gi|425039329|ref|ZP_18443877.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 513]
gi|425045653|ref|ZP_18449740.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 510]
gi|425049482|ref|ZP_18453329.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 509]
gi|425051398|ref|ZP_18455064.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 506]
gi|425059340|ref|ZP_18462686.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 504]
gi|425062159|ref|ZP_18465330.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 503]
gi|427395200|ref|ZP_18888122.1| RNA polymerase sigma factor rpoD [Enterococcus durans FB129-CNAB-4]
gi|430820429|ref|ZP_19439061.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0045]
gi|430821924|ref|ZP_19440505.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0120]
gi|430825044|ref|ZP_19443255.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0164]
gi|430828311|ref|ZP_19446433.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0269]
gi|430830261|ref|ZP_19448319.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0333]
gi|430833555|ref|ZP_19451567.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0679]
gi|430836259|ref|ZP_19454242.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0680]
gi|430838928|ref|ZP_19456871.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0688]
gi|430844551|ref|ZP_19462449.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1050]
gi|430846534|ref|ZP_19464392.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1133]
gi|430850131|ref|ZP_19467897.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1185]
gi|430852830|ref|ZP_19470561.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1258]
gi|430854361|ref|ZP_19472074.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1392]
gi|430858603|ref|ZP_19476230.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1552]
gi|430861922|ref|ZP_19479274.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1573]
gi|430864408|ref|ZP_19480330.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1574]
gi|430870358|ref|ZP_19483213.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1575]
gi|430958918|ref|ZP_19486782.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1576]
gi|431010111|ref|ZP_19489636.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1578]
gi|431193717|ref|ZP_19500224.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1620]
gi|431228335|ref|ZP_19501476.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1622]
gi|431259204|ref|ZP_19505381.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1623]
gi|431295498|ref|ZP_19507386.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1626]
gi|431368551|ref|ZP_19509365.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1627]
gi|431436396|ref|ZP_19513095.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1630]
gi|431503078|ref|ZP_19515314.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1634]
gi|431539169|ref|ZP_19517673.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1731]
gi|431626828|ref|ZP_19523067.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1904]
gi|431743437|ref|ZP_19532316.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2071]
gi|431745719|ref|ZP_19534558.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2134]
gi|431748772|ref|ZP_19537527.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2297]
gi|431754364|ref|ZP_19543027.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2883]
gi|431758843|ref|ZP_19547464.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3346]
gi|431766269|ref|ZP_19554762.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E4215]
gi|431766733|ref|ZP_19555194.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1321]
gi|431770348|ref|ZP_19558748.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1644]
gi|431772868|ref|ZP_19561205.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2369]
gi|431778282|ref|ZP_19566493.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E4389]
gi|431782362|ref|ZP_19570497.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E6012]
gi|431785253|ref|ZP_19573279.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E6045]
gi|68194219|gb|EAN08744.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70
region 4:Sigma-70 region 1.2 [Enterococcus faecium DO]
gi|257812203|gb|EEV40961.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,230,933]
gi|257816896|gb|EEV44224.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,502]
gi|257820742|gb|EEV47890.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,501]
gi|257826186|gb|EEV52812.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,231,410]
gi|260074783|gb|EEW63099.1| RNA polymerase sigma-43 factor [Enterococcus faecium C68]
gi|260077942|gb|EEW65648.1| RNA polymerase sigma-43 factor [Enterococcus faecium TC 6]
gi|289163078|gb|EFD10925.1| RNA polymerase sigma factor rpoD [Enterococcus faecium D344SRF]
gi|291589255|gb|EFF21065.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1071]
gi|291592333|gb|EFF23947.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1636]
gi|291595506|gb|EFF26816.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1679]
gi|291601048|gb|EFF31337.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1039]
gi|291604635|gb|EFF34120.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E1162]
gi|313588970|gb|EFR67815.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a01]
gi|313591562|gb|EFR70407.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133B]
gi|313596157|gb|EFR75002.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133A]
gi|313600109|gb|EFR78952.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133C]
gi|313641279|gb|EFS05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0133a04]
gi|313643734|gb|EFS08314.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX0082]
gi|364091895|gb|EHM34318.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E4453]
gi|378938239|gb|AFC63311.1| RNA polymerase sigma factor RpoD [Enterococcus faecium Aus0004]
gi|388533520|gb|AFK58712.1| RNA polymerase sigma-43 factor [Enterococcus faecium DO]
gi|402918645|gb|EJX39313.1| RNA polymerase sigma factor RpoD [Enterococcus faecium V689]
gi|402923024|gb|EJX43360.1| RNA polymerase sigma factor RpoD [Enterococcus faecium S447]
gi|402925744|gb|EJX45851.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R501]
gi|402930275|gb|EJX49951.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R499]
gi|402934094|gb|EJX53483.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R496]
gi|402936283|gb|EJX55470.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R494]
gi|402937981|gb|EJX57025.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R497]
gi|402943243|gb|EJX61743.1| RNA polymerase sigma factor RpoD [Enterococcus faecium R446]
gi|402945793|gb|EJX64123.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1190]
gi|402947041|gb|EJX65273.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1986]
gi|402953044|gb|EJX70802.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1137]
gi|402953825|gb|EJX71506.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1140]
gi|402954367|gb|EJX71999.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1139]
gi|402963646|gb|EJX80498.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV99]
gi|402967402|gb|EJX83955.1| RNA polymerase sigma factor RpoD [Enterococcus faecium P1123]
gi|402971572|gb|EJX87837.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV69]
gi|402973467|gb|EJX89593.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV38]
gi|402977346|gb|EJX93169.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV26]
gi|402978850|gb|EJX94561.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV168]
gi|402984960|gb|EJY00216.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV161]
gi|402985281|gb|EJY00503.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV165]
gi|402990378|gb|EJY05251.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV1]
gi|402990785|gb|EJY05643.1| RNA polymerase sigma factor RpoD [Enterococcus faecium ERV102]
gi|403000162|gb|EJY14306.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E422]
gi|403001359|gb|EJY15420.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E417]
gi|403002356|gb|EJY16337.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C621]
gi|403006182|gb|EJY19847.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C1904]
gi|403010303|gb|EJY23689.1| RNA polymerase sigma factor RpoD [Enterococcus faecium C497]
gi|403013141|gb|EJY26268.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 514]
gi|403016367|gb|EJY29190.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 513]
gi|403026576|gb|EJY38539.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 510]
gi|403027342|gb|EJY39235.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 509]
gi|403035445|gb|EJY46833.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 504]
gi|403037666|gb|EJY48930.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 506]
gi|403039276|gb|EJY50439.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 503]
gi|404454544|gb|EKA01472.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD4E]
gi|404458200|gb|EKA04647.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD3E]
gi|404463859|gb|EKA09438.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD2E]
gi|404470756|gb|EKA15351.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD1E]
gi|410733922|gb|EKQ75844.1| RNA polymerase sigma factor RpoD [Enterococcus sp. GMD5E]
gi|425724336|gb|EKU87220.1| RNA polymerase sigma factor rpoD [Enterococcus durans FB129-CNAB-4]
gi|430439560|gb|ELA49896.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0045]
gi|430443756|gb|ELA53718.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0120]
gi|430446545|gb|ELA56213.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0164]
gi|430482863|gb|ELA59962.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0333]
gi|430483606|gb|ELA60674.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0269]
gi|430486296|gb|ELA63155.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0679]
gi|430488616|gb|ELA65278.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0680]
gi|430491329|gb|ELA67802.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E0688]
gi|430497141|gb|ELA73200.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1050]
gi|430536163|gb|ELA76540.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1185]
gi|430538834|gb|ELA79108.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1133]
gi|430541664|gb|ELA81809.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1258]
gi|430545230|gb|ELA85216.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1552]
gi|430548020|gb|ELA87925.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1392]
gi|430549213|gb|ELA89045.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1573]
gi|430553955|gb|ELA93629.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1574]
gi|430556603|gb|ELA96100.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1576]
gi|430559011|gb|ELA98393.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1575]
gi|430560606|gb|ELA99902.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1578]
gi|430572127|gb|ELB10993.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1620]
gi|430574637|gb|ELB13400.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1622]
gi|430577299|gb|ELB15904.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1623]
gi|430581588|gb|ELB20033.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1626]
gi|430584139|gb|ELB22489.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1627]
gi|430586993|gb|ELB25227.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1630]
gi|430587701|gb|ELB25922.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1634]
gi|430594432|gb|ELB32401.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1731]
gi|430603082|gb|ELB40625.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1904]
gi|430606869|gb|ELB44206.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2071]
gi|430609925|gb|ELB47097.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2134]
gi|430613098|gb|ELB50121.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2297]
gi|430619772|gb|ELB56591.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2883]
gi|430626970|gb|ELB63513.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3346]
gi|430627045|gb|ELB63581.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E4215]
gi|430631968|gb|ELB68259.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1321]
gi|430635275|gb|ELB71371.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1644]
gi|430637556|gb|ELB73564.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2369]
gi|430643828|gb|ELB79531.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E4389]
gi|430647697|gb|ELB83138.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E6012]
gi|430647740|gb|ELB83179.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E6045]
Length = 369
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 163/300 (54%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSL----------------------ARE 267
RL RLG +PS E+ + +S EL+ I+ L AR
Sbjct: 114 RLAARLGHKPSFERWLKAGNLSMAELKEIIAVGKLRWAKLTGLNVKELEQIQTEGIEARH 173
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+++ +N+RLV+SIA++Y N G ++ DL+Q G +GL R +EKFD +G++ STY YWWIRQ
Sbjct: 174 QMISTNLRLVVSIAKKYQNRGVELLDLIQEGTLGLERAVEKFDPQRGYRFSTYAYWWIRQ 233
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ + ++ +EKG T V+ IA L ++ +VR
Sbjct: 234 GITRAIATQSRTIRLPIHVSEKLNKIKKVQQKIFQEKGYTAKVEEIARELKITAAQVREV 293
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
I SL+ + + GE + A +P + +L + +L++ L
Sbjct: 294 LVKIPHSVSLETKVGRDRDTELGELLETKDA------SPEEMLIRESLVQALKELLL-DL 346
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RER +I + YGL D + +I+ + LSRERVRQ+ + AL KL+ + +++ L
Sbjct: 347 TQRERYVITMRYGLEDGRACSLSEIASALKLSRERVRQIEVKALHKLRQPKFRNQIQDYL 406
>gi|88808921|ref|ZP_01124430.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
gi|88786863|gb|EAR18021.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
Length = 322
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 97/306 (31%), Positives = 178/306 (58%), Gaps = 10/306 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + L+E+ G E + +LA + +S
Sbjct: 13 VRSYLRDIGRVPLLSHQQEITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLS 72
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 73 AVQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 132
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TPSV
Sbjct: 133 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVT 192
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A ++ + + +V+ + SL+ + +G E D + P V+
Sbjct: 193 ELASFVELPEDEVKELMCRARQPVSLEMKVG---DGDDTELLDLLAGDGEL---PSEQVE 246
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVAL 489
LK ++ L + L E + ++R+ YG+D +E ++ I+K + +SR+R R++ L
Sbjct: 247 GECLKGDLRDL-LGQLPELQERVLRMRYGMDGEEPMSLTGIAKTLKMSRDRTRRLEREGL 305
Query: 490 EKLKHA 495
+ L+ A
Sbjct: 306 QSLRQA 311
>gi|416134915|ref|ZP_11598376.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E4452]
gi|364092345|gb|EHM34726.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E4452]
Length = 369
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>gi|393724260|ref|ZP_10344187.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26605]
Length = 676
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 434 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 493
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 494 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 553
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 554 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 605
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 606 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 664
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 665 SRSRKMRSFL 674
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 114/317 (35%), Positives = 178/317 (56%), Gaps = 30/317 (9%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
+S L+ + ++ Y++ + LLT + RL++ I+ G ++++K+ +P+ +
Sbjct: 90 LSDALLGDSVRLYLREIGQVPLLTAEQEKRLAQTIERG---QKAQVKIKD---LDPTSAE 143
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
EL+ + + + AR+++ +N+RLV+SIA+RY + G + DL+Q G +GLL
Sbjct: 144 AV--------ELRRQIEKGNDARQQMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLL 195
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
R IEKFD KGFK STY WWI+Q +SRAL + SR +RLP HL E L I+ A+ +L ++
Sbjct: 196 RAIEKFDHDKGFKFSTYATWWIKQALSRALADQSRLVRLPVHLGETLNRIQAARRQLTQR 255
Query: 364 -GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 422
G P +A+ L+MSQ+K+R SL A P GE S +AD
Sbjct: 256 LGREPYDSELADELSMSQEKLRELRRTAQDPVSL---ATPV-----GEEADSTLAD--FI 305
Query: 423 NNPWHGVDDWALKDEVNKLIIVT----LGEREREIIRLYYGL-DKECLTWEDISKRIGLS 477
+P D A + + I T L ERER+++ L YGL D + T E++ K G++
Sbjct: 306 PDPHALDADDAAASGMLRQQIATALDQLTERERKVLELRYGLTDGQPRTLEEVGKAFGVT 365
Query: 478 RERVRQVGLVALEKLKH 494
RERVRQ+ + AL KL+H
Sbjct: 366 RERVRQIEVKALRKLRH 382
>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 (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 173/301 (57%), Gaps = 27/301 (8%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKL 269
L I G+S+DD ++ LKE +G P + E++ + RI + + + A+ +L
Sbjct: 75 LDLSIPEGISIDDPVRMYLKE-IGKVPLLTAEEEIELAHRIEQGDAE--------AKRRL 125
Query: 270 VMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGV 329
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ +
Sbjct: 126 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAI 185
Query: 330 SRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 388
+RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR
Sbjct: 186 TRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR---- 241
Query: 389 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVT 445
++ + +E SL GE S++ D +++ P LK+++ ++ T
Sbjct: 242 ---EIMKISQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDT 296
Query: 446 LGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++
Sbjct: 297 LTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDY 356
Query: 505 L 505
L
Sbjct: 357 L 357
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/293 (33%), Positives = 165/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRIS----RP------------------ELQSILMECSLARE 267
RL LG PS+E+ A + I +P EL+ + + A+E
Sbjct: 146 RLTSELGHRPSLERWANTAGIELVDLKPTLANGKRRWAEIAQLTVEELEQVQSQGLQAKE 205
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 206 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 265
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR
Sbjct: 266 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPTQVREV 325
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + P + +L+ +++ L + L
Sbjct: 326 LLKVPRSVSLETKVGKDKDTELGELLETDCV------TPEEMLMRESLQKDLHSL-LADL 378
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 379 TSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 431
>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 = 9e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 437 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 496
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 497 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 556
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 557 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 608
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 609 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 667
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 668 SRSRKMRSFL 677
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 147 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 206
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 207 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIGEEMDLLPEKV 266
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 267 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 317
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 318 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 376
Query: 499 KKMEAML 505
K+++ L
Sbjct: 377 KRLKDFL 383
>gi|294622679|ref|ZP_06701641.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317]
gi|425032753|ref|ZP_18437770.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 515]
gi|431776262|ref|ZP_19564529.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2560]
gi|291597877|gb|EFF29007.1| RNA polymerase sigma factor RpoD [Enterococcus faecium U0317]
gi|403012152|gb|EJY25413.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 515]
gi|430641596|gb|ELB77397.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2560]
Length = 369
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSNLKE 596
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>gi|33862400|ref|NP_893960.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
gi|33640513|emb|CAE20302.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9313]
Length = 335
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/325 (30%), Positives = 184/325 (56%), Gaps = 20/325 (6%)
Query: 181 RSMISPELIQNR--------LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLK 232
+S++ P ++ R ++ Y++ + LL+H + + L ++++ +SL+ + L+
Sbjct: 8 KSLVKPAVVPARQLPADVDLVRSYLRDIGRVPLLSHEQEITLGRQVQELMSLEQLESELE 67
Query: 233 ERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 292
+ G S ++LA + +S +L+ L A+E++V +N+RLV+S+A++Y ++
Sbjct: 68 GQTGEPASRKELAKAAGLSELQLKKKLQSGRRAKERMVSANLRLVVSVAKKYTKRNMELL 127
Query: 293 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGL 352
DL+Q G IGL+RG+EKFD ++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L
Sbjct: 128 DLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNK 187
Query: 353 IRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGET 411
++ + L +E G TP+V +AE++ + +++V++ + SL+ + G+
Sbjct: 188 LKKGQRELSQEMGRTPTVSELAEFVELPEEEVKDLMCRARQPMSLEMKVG------DGDE 241
Query: 412 HHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDI 470
E P V+ +K ++ L + L E + ++R+ YG+D E + I
Sbjct: 242 TELLELLAGEEELPSEKVEVDCMKGDLRTL-LEKLPELQGRVLRMRYGIDGGEPMNLTGI 300
Query: 471 SKRIGLSRERVRQV---GLVALEKL 492
+ + +SR+RVR + GL L +L
Sbjct: 301 GRILDISRDRVRNLERHGLNGLRQL 325
>gi|407960748|dbj|BAM53988.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
Length = 385
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 90/244 (36%), Positives = 152/244 (62%), Gaps = 15/244 (6%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 135 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 194
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 195 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 254
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
AE L M+ ++VR + + SL+ + G+ + + D +E + D+
Sbjct: 255 AEELGMTPEQVREVLTQVPRSVSLELKV--------GQDKDTELMD-LLETDTQSPEDEL 305
Query: 433 ---ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
AL++++ + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ A
Sbjct: 306 MREALQNDMQE-ILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKA 364
Query: 489 LEKL 492
L+KL
Sbjct: 365 LQKL 368
>gi|227551146|ref|ZP_03981195.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus
faecium TX1330]
gi|257887737|ref|ZP_05667390.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733]
gi|257896230|ref|ZP_05675883.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12]
gi|257898868|ref|ZP_05678521.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15]
gi|293379528|ref|ZP_06625670.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1]
gi|293570226|ref|ZP_06681295.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980]
gi|424765155|ref|ZP_18192558.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX1337RF]
gi|425053967|ref|ZP_18457482.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 505]
gi|430840937|ref|ZP_19458858.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1007]
gi|431034734|ref|ZP_19491611.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1590]
gi|431068931|ref|ZP_19494124.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1604]
gi|431102158|ref|ZP_19496769.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1613]
gi|431580904|ref|ZP_19519996.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1861]
gi|431738056|ref|ZP_19527006.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1972]
gi|431740484|ref|ZP_19529399.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2039]
gi|431751483|ref|ZP_19540171.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2620]
gi|431756330|ref|ZP_19544962.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3083]
gi|431761581|ref|ZP_19550143.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3548]
gi|227179708|gb|EEI60680.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterococcus
faecium TX1330]
gi|257823791|gb|EEV50723.1| RNA polymerase sigma-43 factor [Enterococcus faecium 1,141,733]
gi|257832795|gb|EEV59216.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com12]
gi|257836780|gb|EEV61854.1| RNA polymerase sigma-43 factor [Enterococcus faecium Com15]
gi|291609633|gb|EFF38894.1| RNA polymerase sigma factor RpoD [Enterococcus faecium E980]
gi|292641837|gb|EFF60005.1| RNA polymerase sigma factor RpoD [Enterococcus faecium PC4.1]
gi|402417177|gb|EJV49481.1| RNA polymerase sigma factor RpoD [Enterococcus faecium TX1337RF]
gi|403036891|gb|EJY48224.1| RNA polymerase sigma factor RpoD [Enterococcus faecium 505]
gi|430494668|gb|ELA70903.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1007]
gi|430563449|gb|ELB02658.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1590]
gi|430567870|gb|ELB06937.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1604]
gi|430570386|gb|ELB09347.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1613]
gi|430594671|gb|ELB32635.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1861]
gi|430598092|gb|ELB35852.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E1972]
gi|430603348|gb|ELB40878.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2039]
gi|430615264|gb|ELB52222.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E2620]
gi|430620184|gb|ELB56986.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3083]
gi|430624273|gb|ELB60923.1| RNA polymerase sigma factor rpoD [Enterococcus faecium E3548]
Length = 369
Score = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 ARQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYKKGFKFSTYATWW 195
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +++ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 255
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D +++ ++ A LK+++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPAENAAYELLKEQLED 307
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+ AL KL+H +R K
Sbjct: 308 -VLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAKALRKLRHPSRSK 366
Query: 500 KMEAML 505
+++ L
Sbjct: 367 QLKDFL 372
>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 = 157 bits (398), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 112/329 (34%), Positives = 168/329 (51%), Gaps = 63/329 (19%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL A+ V L+K+I+ GL H L ++RLG + R EL
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLETRKRLGEK------------RRREL 72
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 73 EEVVRDGEEARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGF 132
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-------------- 361
K STY WWIRQ ++R + + SRT+RLP HL E++ + A++R E
Sbjct: 133 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKL--ARIRRELHQTLGREATDEEL 190
Query: 362 --EKGVTPSVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHH 413
E G+ VD+I + L S+ V EA F D EA + N + E H
Sbjct: 191 AAESGI--PVDKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDAEAMSAENAVIAELLH 248
Query: 414 SYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISK 472
+ I + ++ TL ERE+++IRL +GLD + T + I K
Sbjct: 249 TDI-----------------------RHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGK 285
Query: 473 RIGLSRERVRQVGLVALEKLKHAARKKKM 501
GLSRERVRQ+ + KL+H R ++
Sbjct: 286 LFGLSRERVRQIEREVMAKLRHGERADRL 314
>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 = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 596
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>gi|87303408|ref|ZP_01086196.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
gi|87282056|gb|EAQ74018.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
Length = 330
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 98/319 (30%), Positives = 186/319 (58%), Gaps = 16/319 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE-PSMEQLAASLRIS 251
++ Y++ + LLTH + + L ++++ + L++ + L+ R G + PS + A++ +S
Sbjct: 22 VRSYLRDIGRVPLLTHEQEITLGRQVQELMRLEETEQELEMRAGGQKPSAAEWASAAGLS 81
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 82 PALLKRKLSSGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 141
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP++
Sbjct: 142 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLS 201
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN--PWHG 428
+A + + +++V++ + SL+ + G+ + + D + P
Sbjct: 202 ELAVCVELPEEEVKDLLCRARQPVSLETKV--------GDGEDTELLDLLQGDGTLPAES 253
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLV 487
VD L+ ++ L + L E +R ++ + YG+D E ++ I++ +G+SR++ R +
Sbjct: 254 VDSECLRGDMRAL-LEQLPELQRSVLSMRYGIDGDEPMSLTSIARTLGMSRDKTRNLERR 312
Query: 488 ALEKLKHAARKKKMEAMLV 506
ALE ++ +R ++E LV
Sbjct: 313 ALEGIR--SRSCRLEGYLV 329
>gi|300768133|ref|ZP_07078038.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp.
plantarum ATCC 14917]
gi|308180761|ref|YP_003924889.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp.
plantarum ST-III]
gi|380032739|ref|YP_004889730.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum WCFS1]
gi|418275500|ref|ZP_12890823.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum subsp. plantarum NC8]
gi|448821467|ref|YP_007414629.1| RNA polymerase sigma factor [Lactobacillus plantarum ZJ316]
gi|300494197|gb|EFK29360.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp.
plantarum ATCC 14917]
gi|308046252|gb|ADN98795.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp.
plantarum ST-III]
gi|342241982|emb|CCC79216.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum WCFS1]
gi|376009051|gb|EHS82380.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum subsp. plantarum NC8]
gi|448274964|gb|AGE39483.1| RNA polymerase sigma factor [Lactobacillus plantarum ZJ316]
Length = 368
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N+RL
Sbjct: 91 SGIKINDPVRMYLKEIGRVDLLTADEEVALALRIEQGD--------ESAKQELAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D + + D A LK+++ ++ TL +RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEG-VLDTLTDREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>gi|259503187|ref|ZP_05746089.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041]
gi|259168844|gb|EEW53339.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041]
Length = 380
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +LRI + + +A+++L +N+RL
Sbjct: 103 TGVKINDPVRMYLKEIGRVNLLTADEEVKLALRIEQGD--------EVAKQQLAEANLRL 154
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +GFK STY WWIRQ ++RA+ +
Sbjct: 155 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRRGFKFSTYATWWIRQAITRAIADQ 214
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M +KVRN +
Sbjct: 215 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTEKVRN-------ILK 267
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D + + D A + +L ++ TL +RE +
Sbjct: 268 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYEMMKKQLENVLDTLTDREENV 326
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 327 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>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 = 1e-35, Method: Compositional matrix adjust.
Identities = 100/301 (33%), Positives = 177/301 (58%), Gaps = 25/301 (8%)
Query: 219 KTGLSLDDHKLRLKERL-GCEPSMEQLAASLRISRPELQSILM-------ECSLAREKLV 270
K G+SL+D + +L++R E ++++ EL + L + LA+ +LV
Sbjct: 296 KLGISLEDVQ-KLEKRFKSAERKLKKIEQESGFKASELSTALQAIEEGEHKAKLAKSELV 354
Query: 271 MSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVS 330
+N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++
Sbjct: 355 EANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAIT 414
Query: 331 RALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEA 389
RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE +++ KVR
Sbjct: 415 RAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMSLPLDKVR----- 469
Query: 390 IGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVNKLIIVT 445
KV + +E SL GE S++ D +E+ +P V L ++ ++ ++ T
Sbjct: 470 --KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSEQTSR-VLST 524
Query: 446 LGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R KK+++
Sbjct: 525 LTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSF 584
Query: 505 L 505
+
Sbjct: 585 V 585
>gi|427730640|ref|YP_007076877.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427366559|gb|AFY49280.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 352
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 95/303 (31%), Positives = 173/303 (57%), Gaps = 9/303 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ +SL D K L ++L EPS+ + A + S
Sbjct: 45 VRTYLREIGRVPLLTREQEIVYGKQVQQMMSLLDAKEALAKKLEREPSLPEWADHVHQSE 104
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E++ + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 105 TEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 164
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L + G +PS
Sbjct: 165 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSPAE 224
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ L + ++R + SLD G +T + ++ + ++ +
Sbjct: 225 IAKELELEPAQIREYLNMARQPVSLDVRV-----GDNQDTELQEMLEDEGPSPEYYTTQE 279
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+ L+ ++N L + L ++RE++ L +GL D ++ + +R+ LSRERVRQ+ AL
Sbjct: 280 F-LRQDLNTL-LAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALA 337
Query: 491 KLK 493
L+
Sbjct: 338 HLR 340
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>gi|332708935|ref|ZP_08428906.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332352477|gb|EGJ32046.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332651118|gb|AEE81160.1| putative RNA polymerase sigma factor [Moorea producens 3L]
Length = 333
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 98/311 (31%), Positives = 182/311 (58%), Gaps = 19/311 (6%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LLTH + + K+++ ++L K L + L EP+ E+ A+ + S
Sbjct: 26 VRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALLGEKATLAQELEREPTTEEWASYVNKSE 85
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ + + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 86 AELKKAIDQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPT 145
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE---KGVTPSV 369
+G+K STY YWWIRQ ++RA+ + +R +RLP H+ E+L I+ + L + + TP+
Sbjct: 146 RGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQTLGRNATPT- 204
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWH 427
IA+ L++ ++R + S+ R+ SL+ G+ + +++ ++ P +
Sbjct: 205 -EIAKELDLEPAQIR-------EYLSIARQPI-SLDVRVGDNQDTELSELLEDDGLTPVN 255
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
+L+ ++N L++ L ++RE++ L +GL D + L+ + KR+ LSRERVRQ+
Sbjct: 256 YTTQESLRQDLN-LLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRERVRQLEH 314
Query: 487 VALEKL--KHA 495
AL +L +HA
Sbjct: 315 QALAQLRRRHA 325
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>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 (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 439 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 498
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 499 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 558
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 559 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 610
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 611 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 669
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 670 SRSRKMRSFL 679
>gi|116074383|ref|ZP_01471645.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
gi|116069688|gb|EAU75440.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
Length = 341
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 179/306 (58%), Gaps = 13/306 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP-SMEQLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + LK G E + E LA +S
Sbjct: 33 VRSYLRDIGRVPLLSHQQEITLGRQVQDLMELEALESELKSESGEEVVAPEALAKKAGLS 92
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 93 GVQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 152
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 153 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVT 212
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+AE++ + +++V++ + SL+ + +G E D + P V+
Sbjct: 213 ELAEFVELPEEEVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDGEL---PSEQVE 266
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQV---GL 486
LK ++ L + L E +R+++R+ YG++ E ++ I + IG+SR+RVR + GL
Sbjct: 267 GECLKGDLRDL-LEQLPELQRKVLRMRYGMNGEDPMSLTGIGRIIGISRDRVRNLERDGL 325
Query: 487 VALEKL 492
L +L
Sbjct: 326 AGLRRL 331
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + +++ +LRI + + + A+++L +N+RL
Sbjct: 92 TGIKINDPVRMYLKEIGRVSLLNAQQEVDLALRIEQGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M+ KVR ++
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMNTDKVR-------EILK 256
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 257 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPEEHASYELLKEQLES-VLDTLTDREEN 314
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 315 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>gi|404253692|ref|ZP_10957660.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26621]
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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 433 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 492
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 493 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 552
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 553 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 604
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 605 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 663
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 664 SRSRKMRSFL 673
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/322 (33%), Positives = 185/322 (57%), Gaps = 29/322 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL--A 245
L + ++ Y+K + +LLT +E V L+ KI+ G + KL E + +L A
Sbjct: 149 LTGDPVRMYLKEIGKVDLLTASEEVHLAMKIEAGTAAS-QKLE-----DFEDGLIELNRA 202
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
R+ R ++S+ ++ A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R
Sbjct: 203 EQRRLMR--IESVGLD---AKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRA 257
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKG 364
+EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G
Sbjct: 258 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFG 317
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN 424
P+ + I + MS +VR ++ + +E SL GE S + D +E++
Sbjct: 318 RDPTPEEIGSEMGMSPDRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDS 368
Query: 425 ----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
P D L++++ + ++ +L +RER++I+ +GL D T E++ K G++RE
Sbjct: 369 TAVAPPDAASDSMLREQLEQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTRE 427
Query: 480 RVRQVGLVALEKLKHAARKKKM 501
R+RQ+ L KL+H +R ++
Sbjct: 428 RIRQIESKTLAKLRHPSRSGRL 449
>gi|428768890|ref|YP_007160680.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428683169|gb|AFZ52636.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 363
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/323 (32%), Positives = 181/323 (56%), Gaps = 14/323 (4%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I++ + + K + LL+ E V L+ +K ++ + L +L PS +LA ++
Sbjct: 48 IEDSIGSFFKEMARYPLLSAEEEVNLAYAVKFLSDCEEKQQELHRQLERTPSKMELAKAM 107
Query: 249 RI-SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+ S +L + L + A+ K++ SN+RLV+SIA+RY N G DL+Q G IGL R E
Sbjct: 108 GLESERQLDNRLYKGRTAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAE 167
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVT 366
KFD +KG+K STY YWWIRQ ++R + +SRT+RLP H+ E+L ++ A+ L++
Sbjct: 168 KFDPNKGYKFSTYAYWWIRQAITRTIANDSRTIRLPIHIVEKLNKLKKAQRILKQDLQRQ 227
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ +AE + +++ +A+ ++ L R++ SLN G+ + + + + N
Sbjct: 228 PTEKELAEEMGITR-------QALHQLLQLKRQSL-SLNHRVGKGEDTELMELLEDTNLL 279
Query: 425 -PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
P +++ + E+ ++ L ERE+E+I L YGL + T E++ K LSRERVR
Sbjct: 280 LPEDKMNEAMMHQEIVSVLSDVLSEREKEVIVLRYGLASSKAHTLEEVGKIFDLSRERVR 339
Query: 483 QVGLVALEKLKHAARKKKMEAML 505
Q+ A+ KL+ ++++ L
Sbjct: 340 QIQTKAMRKLRRPQVARRLKGWL 362
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 180/320 (56%), Gaps = 25/320 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT +E V L+ KI+ G KL + E + ++
Sbjct: 155 LTGDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGTEAS-QKLEAADNGEIELTRAEMRRL 213
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+RI + L+ A++ L+ +N+RL +SIA+RY G DL+Q G +GL+R +E
Sbjct: 214 MRIEQVGLE--------AKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 265
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G
Sbjct: 266 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRD 325
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ + I E + ++ +VR ++ + +E SL GE S + D +E++
Sbjct: 326 PTPEEIGEEMGITADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDSSA 376
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P D L++++ + ++ +L +RER++I+ +GL D T E++ + G++RER+
Sbjct: 377 VAPPEAASDSMLREQLEQ-VLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERI 435
Query: 482 RQVGLVALEKLKHAARKKKM 501
RQ+ L KL+H +R ++
Sbjct: 436 RQIESKTLAKLRHPSRSGRL 455
>gi|3062909|dbj|BAA25730.1| SigA [Bacillus sp.]
Length = 372
Score = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDVGREPSPEEVAEEMDLTPEKV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDALAPSDAAAYELLKEQLE 305
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 306 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 364
Query: 499 KKMEAML 505
K+++ L
Sbjct: 365 KRLKDFL 371
>gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155]
Length = 319
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 168/307 (54%), Gaps = 27/307 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL A+ V L+K+I+ GL H L K+RLG + +L
Sbjct: 26 YLNGIGKTALLNAADEVELAKRIEAGLYAQ-HLLDTKKRLG------------EARKRDL 72
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q+++ + AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 73 QAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGF 132
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K + + G + + +AE
Sbjct: 133 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAE 192
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+ +K+ + E SLD +P T + +E++ ++ +
Sbjct: 193 ESGIPVEKINDLLEHSRDPVSLD---------MPVGTDEEAPLGDFIEDSEAMSAENAVI 243
Query: 435 KDEVN---KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
+ ++ + ++ TL ERE+++IRL +GLD + T + I K GLSRERVRQ+ +
Sbjct: 244 SELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMA 303
Query: 491 KLKHAAR 497
KL++ R
Sbjct: 304 KLRNGER 310
>gi|324999213|ref|ZP_08120325.1| RNA polymerase sigma factor SigB [Pseudonocardia sp. P1]
Length = 380
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/310 (32%), Positives = 173/310 (55%), Gaps = 15/310 (4%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT AE V L+K+I+ G+ H+L + E ++E L R +L
Sbjct: 81 YLNGIGRTALLTAAEEVDLAKRIEAGI-FAQHRL---DTATAEGTLESLDPQYR---RDL 133
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ + +LA+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 134 RAVVRDGALAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGF 193
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + +RT+RLP HL E++ + K + ++ G PS +A+
Sbjct: 194 KFSTYATWWIRQAITRGMADQARTIRLPVHLVEQVNKLARIKRDMHQRQGREPSEAELAQ 253
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+ + K+ + + SLD G+ +I D + + V L
Sbjct: 254 ESGIPEHKISDLLDHARDPVSLDMPVGSEEEAPLGD----FIEDAEA-TDAENTVISSLL 308
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
D++ + ++ TL +RE+++IR+ +GLD + T + I + LSRERVRQ+ + KL+
Sbjct: 309 SDDLRR-VLATLEDREQKVIRMRFGLDDGQPRTLDQIGRAFTLSRERVRQIEREVMAKLR 367
Query: 494 HAARKKKMEA 503
R K+ A
Sbjct: 368 VGERADKLRA 377
>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 (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 439 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 498
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 499 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 558
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 559 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 610
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 611 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 669
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 670 SRSRKMRSFL 679
>gi|414079421|ref|YP_007000845.1| RpoD family RNA polymerase sigma factor SigB [Anabaena sp. 90]
gi|413972700|gb|AFW96788.1| RpoD family RNA polymerase sigma factor SigB [Anabaena sp. 90]
Length = 327
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 93/315 (29%), Positives = 179/315 (56%), Gaps = 15/315 (4%)
Query: 184 ISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQ 243
++ + + ++ Y++ + LL+ + + K+++ ++L + K L++ + EPS+ +
Sbjct: 11 VNAKFTADMVRTYLREIGRVPLLSREQEIIYGKQVQQMMALLEAKEALRKEIDHEPSLSE 70
Query: 244 LAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLL 303
AA + S EL ++++ A++K++ +N+RLV++IA++Y + DL+Q G +GL
Sbjct: 71 WAARVNQSETELNHLMVQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLE 130
Query: 304 RGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK 363
RG+EKFD +G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L +
Sbjct: 131 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQT 190
Query: 364 -GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 422
G +P+ IA+ L + ++R + SLD GE + + + +
Sbjct: 191 LGRSPTPTEIAKELELEPAQIREYLNMARQPVSLDVRV--------GENQDTELQEMLED 242
Query: 423 NNP---WHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
+ P ++ ++ L+ ++N L + L ++R+++ L +GL D L+ + +R+ LSR
Sbjct: 243 DGPSPEYYTTQEF-LRHDLNNL-LAELTPQQRQVVALRFGLEDGNELSLAKVGERLNLSR 300
Query: 479 ERVRQVGLVALEKLK 493
ERVRQ+ AL L+
Sbjct: 301 ERVRQLEHQALAHLR 315
>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 (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/243 (36%), Positives = 146/243 (60%), Gaps = 14/243 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 91 ARDELITANLRLVVSIAKKYMGRGLSFLDLIQEGNLGLMRAVEKFDPTKGFKFSTYATWW 150
Query: 325 IRQGVSRALVENSRTLRLPNHLHERL-GLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+R+P H+ E + L R K ++E G P ++ ++ L + Q+K+
Sbjct: 151 IRQAITRAIADQSRTIRIPVHMIETVRELQRLKKEHVQEHGAAPDLEALSSELGIPQEKI 210
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
+ SL+R GE + D ++ +P L +E+++
Sbjct: 211 KQVENVSQYTTSLERPI--------GEDEEDTLGDFIEDKDAPSPTKETYRMFLVEELDR 262
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
+ L +RE+EI++L YGL D T +D+++ ++RERVRQ+ + ALEKLKH RK+
Sbjct: 263 -ALNQLTDREKEILKLRYGLEDGHPRTLKDVARVFNITRERVRQIEIKALEKLKHPTRKE 321
Query: 500 KME 502
+++
Sbjct: 322 ELQ 324
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 149/246 (60%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 136 ARQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYKKGFKFSTYATWW 195
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +++ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 255
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D +++ ++ A LK+++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPAENAAYELLKEQLED 307
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD T ED+ K G++RER+RQ+ AL KL+H +R K
Sbjct: 308 -VLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAKALRKLRHPSRSK 366
Query: 500 KMEAML 505
+++ L
Sbjct: 367 QLKDFL 372
>gi|148239880|ref|YP_001225267.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. WH 7803]
gi|147848419|emb|CAK23970.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 322
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 178/307 (57%), Gaps = 12/307 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCE--PSMEQLAASLRI 250
++ Y++ + LL+H + + L ++++ + L+ + L+E+ G E P+ E LA + +
Sbjct: 13 VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAE-LAKAAGL 71
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
S +L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 72 SAVQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 131
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L ++ G TPSV
Sbjct: 132 PTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSV 191
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+A ++ + + +V+ + SL+ + +G E D + P V
Sbjct: 192 TELAAFVELPEDEVKELMCRARQPVSLEMKVG---DGDDTELLDLLAGDGEL---PSEQV 245
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGLDKE-CLTWEDISKRIGLSRERVRQVGLVA 488
+ LK ++ L + L E + ++R+ YG+D E ++ I+K + +SR+R R++
Sbjct: 246 EGECLKGDLRDL-LGQLPELQERVLRMRYGMDGEDPMSLTGIAKTLKMSRDRTRRLEREG 304
Query: 489 LEKLKHA 495
LE L+ A
Sbjct: 305 LESLRQA 311
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 165/293 (56%), Gaps = 31/293 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ A + + +L+ IL E A+E
Sbjct: 120 RLASELGHRPSLERWANTAGVQVSDLKPILSEGKRRWAEIAKMTVEELEQIQSNGLQAKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPSQVREV 299
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + + GE + + V P + +L+ ++ L + L
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGE----LLETDGV--TPEEMLMRESLQRDLQHL-LADL 352
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
RER++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 353 TSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 110/311 (35%), Positives = 170/311 (54%), Gaps = 27/311 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT A+ V LSK+I+ GL H L +RL P+ ++ +L
Sbjct: 30 YLNGIGRTALLTAADEVELSKRIEAGLYAA-HILETGKRLS--PAKKR----------DL 76
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ E AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 77 ATVVREGQSARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 136
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +AE
Sbjct: 137 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAE 196
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDD 431
+ K+ + + SLD G+ +I D+ EN G+
Sbjct: 197 ESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDSEATSAENAVIAGL-- 250
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
L +V + ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ +
Sbjct: 251 --LHSDV-RTVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMG 307
Query: 491 KLKHAARKKKM 501
KL+ R +++
Sbjct: 308 KLRQGDRAERL 318
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 92/274 (33%), Positives = 161/274 (58%), Gaps = 21/274 (7%)
Query: 244 LAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+AA ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 408 IAAQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 467
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 468 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRT 527
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ L E+G P+ + +A L+M +KVR KV + +E SL G+ S+
Sbjct: 528 SRQFLHEEGREPTPEEMAARLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 579
Query: 416 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 471
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 580 LGDFIEDKNAVIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 638
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 639 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 672
>gi|124026787|ref|YP_001015902.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL1A]
gi|123961855|gb|ABM76638.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. NATL1A]
Length = 335
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 93/307 (30%), Positives = 178/307 (57%), Gaps = 18/307 (5%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ + L++ + L+ LG +P + A +S
Sbjct: 28 VRSYLRDIGRVPLLSHEQEITLGRQVQDLVVLENLETELESDLGEKPDINFFADKAGLSP 87
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 88 IQLKKKLKSGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 147
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SR++RLP H+ E L ++ + L +E TP++
Sbjct: 148 RGYKFSTYAYWWIRQGITRAIAEKSRSIRLPIHITEMLNKLKKGQRELSQELSRTPTLKE 207
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHG 428
++EY+ + + V++ G+ SL+ + G+ + + D N + + P
Sbjct: 208 LSEYVELPETDVKDLMSRAGQPVSLETKI--------GDGEDTILLDLLSNEI-DMPSEQ 258
Query: 429 VDDWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV--- 484
++ +K ++ L + L E + ++R+ YG+D + ++ I + +G+SR+RVR +
Sbjct: 259 IESDCMKGDLETL-LEQLPELQNRVLRMRYGMDGDDPMSLTGIGRVLGISRDRVRNLERD 317
Query: 485 GLVALEK 491
GL L K
Sbjct: 318 GLRGLRK 324
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDALAPSDAAAYELLKEQLE 305
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 306 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 364
Query: 499 KKMEAML 505
K+++ L
Sbjct: 365 KRLKDFL 371
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/320 (32%), Positives = 176/320 (55%), Gaps = 25/320 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LL +E V L+ KI+ G KL E E + +
Sbjct: 135 LTGDPVRMYLKEIGKVDLLNASEEVHLAMKIQAGTDAS-KKLEAAENGEIELTRAEQRRL 193
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
+RI + L A++ L +N+RL +SIA+RY G DL+Q G +GL+R +E
Sbjct: 194 MRIEQVGLD--------AKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 245
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R K L++ G
Sbjct: 246 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQKELLQDLGRE 305
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
P+ + I E + MS +VR ++ + +E SL GE S + D +E++
Sbjct: 306 PTPEEIGEQMKMSADRVR-------EIQKISQEPV-SLETPIGEEEDSSLGDF-IEDSTA 356
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P D L++++N+ ++ L +RER++I+ +GL D T E++ + G++RER+
Sbjct: 357 VAPPDAASDSMLREQLNQ-VLDGLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERI 415
Query: 482 RQVGLVALEKLKHAARKKKM 501
RQ+ L KL+H +R ++
Sbjct: 416 RQIESKTLAKLRHPSRSGRL 435
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 126 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGFKFSTYATWW 185
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R ++ L+E G P + IA+ ++M KV
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLMRVSRQLLQELGRDPQPEEIAKRMDMPVSKV 245
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + + P LK+++ +
Sbjct: 246 R-------EIMKISQEPV-SLETPIGEEEDSHLGDFIPDEDIPVPAEAAAFTLLKEQLIE 297
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R K
Sbjct: 298 -VLDTLTEREQKVLRLRFGLDDGRARTLEEVGKEFSVTRERIRQIEAKALRKLRHPSRSK 356
Query: 500 KMEAML 505
K++ L
Sbjct: 357 KLKDYL 362
>gi|167772125|ref|ZP_02444178.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM
17241]
gi|167665923|gb|EDS10053.1| RNA polymerase sigma factor RpoD [Anaerotruncus colihominis DSM
17241]
Length = 361
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 107/345 (31%), Positives = 191/345 (55%), Gaps = 40/345 (11%)
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-K 228
+L+QN + + M++P ++ K KG T +V ++ G+++DD K
Sbjct: 47 DLLEQNNIEIIEDMVTP--VEEDFKDLGKG-------TDLDVALAAE----GINIDDPVK 93
Query: 229 LRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYD 285
+ LKE +G P + E++ ++R+++ ++ AR++L +N+RLV+SIA+RY
Sbjct: 94 VYLKE-IGRVPLLSADEEIDLAVRMAQGDID--------ARKRLSEANLRLVVSIAKRYV 144
Query: 286 NMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNH 345
G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H
Sbjct: 145 GRGMQFLDLIQEGNLGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVH 204
Query: 346 LHERLGLIRN-AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSL 404
+ E + ++ + L L + G P+ + I+ L+M KVR + SL+
Sbjct: 205 MVETINKVKKVSSLLLHKNGHEPTAEEISAELDMPVDKVREIMRVAQEPVSLETPI---- 260
Query: 405 NGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL- 460
GE S++ D + + P L++++++ ++ TL RE +++RL +GL
Sbjct: 261 ----GEEEDSHLGDFIPDEDAPAPDTAASHTLLREQLSE-VLQTLTPREEKVLRLRFGLE 315
Query: 461 DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
D T E++ + ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 316 DGRSRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSKKLKDFL 360
>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 (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 104/305 (34%), Positives = 175/305 (57%), Gaps = 22/305 (7%)
Query: 209 AEVVRLSKKIKTGLSLDDH-KLRLKERLGCE--PSMEQLAASLRISRPELQSILMECSLA 265
E + L+ I G+++DD ++ LKE + S E++ S +I + ++ S +A
Sbjct: 59 VEDLDLNSVIPEGITMDDPVRMYLKEIGSVQLLTSEEEILLSKKIKQNDVTS-----RMA 113
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
R+KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWI
Sbjct: 114 RKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDHTKGFKFSTYATWWI 173
Query: 326 RQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
RQ ++RA+ + +RT+R+P H+ E + R ++ L+E G P + IA+ +NM + KVR
Sbjct: 174 RQSITRAIADQARTIRIPVHMVETINKYTRVSRQLLQELGRDPLSEEIAKEMNMPENKVR 233
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKL 441
+ + + SL+ GE S++ D +++ P LK+++
Sbjct: 234 DIRKIAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPAPAEVAAFTLLKEQLMN- 284
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL RE+ +++L +GLD T E++ K ++RER+RQ+ AL KL+H +R KK
Sbjct: 285 VLDTLSPREKNVLKLRFGLDDGRARTLEEVGKEFKVTRERIRQIEAKALRKLRHPSRSKK 344
Query: 501 MEAML 505
++ L
Sbjct: 345 LKDYL 349
>gi|6273430|emb|CAB60192.1| putative sigma-like transcription factor [Arabidopsis thaliana]
Length = 487
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 173/304 (56%), Gaps = 8/304 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 175 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 234
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 235 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 294
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDR 371
G + +TY YWWIRQ + +++ +NSRT+RLP +++ LG + A K ++E PS +
Sbjct: 295 SGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEE 354
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+A ++ +S +K+ S+ + + + T D+ +E P V
Sbjct: 355 LAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDT----TFQEITPDSGIE-TPTMSVGK 409
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALE 490
+++ V L+ V L +ER II+L +G+D + + +I + GLS+ERVRQ+ AL
Sbjct: 410 QLMRNHVRNLLNV-LSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALY 468
Query: 491 KLKH 494
+LK
Sbjct: 469 RLKQ 472
>gi|365129836|ref|ZP_09341218.1| RNA polymerase sigma factor RpoD [Subdoligranulum sp. 4_3_54A2FAA]
gi|363620810|gb|EHL72057.1| RNA polymerase sigma factor RpoD [Subdoligranulum sp. 4_3_54A2FAA]
Length = 362
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/294 (34%), Positives = 166/294 (56%), Gaps = 24/294 (8%)
Query: 221 GLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
G+++DD K+ LKE +G P + E++ +L+I Q+ E A+++L +N+RL
Sbjct: 83 GVNIDDPVKVYLKE-IGRVPLLSPEEEINLALKI-----QAGGPEGEKAKQRLSEANLRL 136
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ +
Sbjct: 137 VVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQ 196
Query: 337 SRTLRLPNHLHERLGLIRNAKLR-LEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + ++ + L G P+ D IAE L+M KVR + S
Sbjct: 197 ARTIRIPVHMVETINKVKKVSSQLLHRNGHEPTADEIAEELDMPVDKVREIMRVAQEPVS 256
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGERERE 452
L+ GE S++ D + + P LK++++ ++ +L RE +
Sbjct: 257 LETPI--------GEEEDSHLGDFIPDEDAPVPAEAASHTLLKEQLSG-VLKSLTPREEK 307
Query: 453 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GL D T E++ K ++RER+RQ+ AL KL+H +R KK+ L
Sbjct: 308 VLRLRFGLEDGRPRTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLRDFL 361
>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 (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 544
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSNLKE 596
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>gi|119509984|ref|ZP_01629125.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119512944|ref|ZP_01632006.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119462397|gb|EAW43372.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119465308|gb|EAW46204.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
Length = 389
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 177/314 (56%), Gaps = 7/314 (2%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
+ K + LL E V L+++++ + + + L+ LG + Q+A L ++ +
Sbjct: 81 AFFKEMARYPLLKPDEEVELARRVRFLEEVREVQAALELELGQPTTKVQVAGQLEMTEKQ 140
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+S L + +A+ K++ SN+RLV+SIA+RY N G DL+Q G +GL R EKFD KG
Sbjct: 141 LESRLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKG 200
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGV-TPSVDRIA 373
+K STY YWWIRQ ++RA+ ++RT+RLP H+ E+L ++ A+ L++K P+ +A
Sbjct: 201 YKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLCRNPNEAEMA 260
Query: 374 EYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA 433
E L +S +++R + + SL+ G +T + ++ +P +++
Sbjct: 261 EALEISVQQLRQLQQLRRQALSLNHRV-----GKEEDTELMDLLEDEDNLSPEAKMNENM 315
Query: 434 LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 492
++ E+ +++ L RE+++I L YGL E T E++ LSRERVRQ+ A+ KL
Sbjct: 316 MRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKL 375
Query: 493 KHAARKKKMEAMLV 506
+ K+++ L+
Sbjct: 376 RRPHIAKRLKGWLI 389
>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 = 88/242 (36%), Positives = 144/242 (59%), Gaps = 14/242 (5%)
Query: 269 LVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQG 328
L+ +N+RLV+SIA++Y G DL+Q G +GL+R +EKFD KGFK STY WWIRQ
Sbjct: 179 LIEANLRLVVSIAKKYIGRGLSFLDLIQEGNLGLIRAVEKFDYRKGFKFSTYATWWIRQA 238
Query: 329 VSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNAT 387
++RA+ + +RT+R+P H+ E + LIR ++ +++ G P+++ IA+ L + +KV +
Sbjct: 239 ITRAIADQARTIRIPVHMVETINKLIRVSRQLVQQLGREPTIEEIAQSLGLPPEKVEDIQ 298
Query: 388 EAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIV 444
+ SL+ GE S + D ++ NP L++++ ++ +
Sbjct: 299 RIAQEPVSLETPI--------GEEEDSQLGDFLEDKESPNPEDATAGQLLREQLEEM-LG 349
Query: 445 TLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 503
L ERERE++RL +GL D T E++ KR ++RER+RQ+ AL KL+H +R K++
Sbjct: 350 ELTEREREVLRLRFGLEDGHAHTLEEVGKRFNVTRERIRQIEAKALRKLRHPSRSKRLRD 409
Query: 504 ML 505
L
Sbjct: 410 YL 411
>gi|293375429|ref|ZP_06621710.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909]
gi|325844412|ref|ZP_08168139.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1]
gi|292645982|gb|EFF64011.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909]
gi|325489086|gb|EGC91470.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1]
Length = 464
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 105/333 (31%), Positives = 178/333 (53%), Gaps = 32/333 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSL------------------DDHKLRLKERLGC 237
Y+K + ELL+ E ++ +KKI+ G L D L +++
Sbjct: 139 YLKEIGRVELLSSQEEIKFAKKIERGDILEEILKYRRQNEALPQELIDRIDLLIQDAGEA 198
Query: 238 EPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQG 297
E L ++ E +L E A+++LV SN+RLV+SIA+R+ G DL+Q
Sbjct: 199 HDGNELLVGITELTEEEADRVLHEAEYAKKRLVESNLRLVVSIARRHIGRGMLFLDLIQE 258
Query: 298 GLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNA 356
G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R
Sbjct: 259 GNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLVRIQ 318
Query: 357 KLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYI 416
+ ++E G P + IAE + ++ +K R ++ + +E SL G+ S +
Sbjct: 319 RQLVQELGREPLPEEIAEKMEITPEKAR-------EILKISQEPI-SLESPVGDEADSSL 370
Query: 417 ADNRVENN---PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISK 472
D + + P + LK E+ + ++ TL +RE ++RL +GL D T E++ K
Sbjct: 371 GDFIPDADALSPSDFTSNEMLKKELAE-VLETLTDREERVLRLRFGLEDGHTRTLEEVGK 429
Query: 473 RIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
G++RER+RQ+ AL KL+H +R ++++ +
Sbjct: 430 EFGVTRERIRQIEAKALRKLRHPSRSRRLKDFM 462
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 440 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 499
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 500 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 559
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 560 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 611
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 612 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 670
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 671 SRSRKMRSFL 680
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 220 EAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTY 279
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G P + I + L+M+
Sbjct: 280 ATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPLPEEIGKELHMT 339
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 436
KVR +V + +E SL GE S++ D + V +P + L++
Sbjct: 340 PDKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLRE 391
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHA 495
++++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 392 QLDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHP 450
Query: 496 ARKKKM 501
R K +
Sbjct: 451 RRSKPL 456
>gi|447912860|ref|YP_007394272.1| RNA polymerase sigma factor RpoD [Enterococcus faecium NRRL B-2354]
gi|445188569|gb|AGE30211.1| RNA polymerase sigma factor RpoD [Enterococcus faecium NRRL B-2354]
Length = 369
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/295 (34%), Positives = 170/295 (57%), Gaps = 27/295 (9%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 92 TGVKINDPVRMYLKEIGRVSLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 143
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 144 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 203
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE-AIGKVF 394
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR + A G V
Sbjct: 204 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQGPV- 262
Query: 395 SLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERER 451
SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 263 --------SLETPIGEEDDSHLGDFIEDQEATSPAEHAAYELLKEQLED-VLDTLTDREE 313
Query: 452 EIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/316 (32%), Positives = 174/316 (55%), Gaps = 30/316 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+K V LLT E V L+++I+ G R+ E + R R EL
Sbjct: 112 YLKEVSRIPLLTAEEEVELAQRIERG------------RMAREELARGNVSPKR--RAEL 157
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ + ARE L+ +N RLV+S+A++Y G DL+Q G IGL+R +KFD +G
Sbjct: 158 RKLIEDGWAAREHLITANSRLVISVAKKYMGRGVPFLDLIQEGNIGLIRATKKFDYRRGH 217
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ V+RA+ + RT+R+P H+ +++ + + +L +K G P++D +AE
Sbjct: 218 KFSTYATWWIRQAVTRAIADQGRTIRVPVHMGDQINKLLRVQHQLTQKLGREPTIDELAE 277
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA- 433
L + +KV N + + SL+ P + + + +E+ D+ A
Sbjct: 278 ALGVPPRKVENMIQVARRPLSLE---------TPTDDEEDSVLGDFIEDEEAAPPDETAT 328
Query: 434 ---LKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVAL 489
L++++N+ I+ TL RE I++L YG LD + T E++ +++G++RERVRQ+ AL
Sbjct: 329 YNLLREQLNE-ILSTLPPREVRILQLRYGLLDGQSYTLEEVGRKMGVTRERVRQIEAQAL 387
Query: 490 EKLKHAARKKKMEAML 505
+L+H + ++K+ L
Sbjct: 388 SRLRHPSIRRKLRDYL 403
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 136 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATWW 195
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L++ G P+ + I +++ +KV
Sbjct: 196 IRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQDLGREPTPEEIGAEMDLPTEKV 255
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D ++N + A LK+++++
Sbjct: 256 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDDNATSPAEHTAYALLKEQLDE 307
Query: 441 LIIVTLGEREREIIRLYYGLDK--ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ L +RE ++RL +GLDK E T E + + G++RER+RQ+ AL KL+H +R
Sbjct: 308 -VLEQLTDREENVLRLRFGLDKNGEIRTLEQVGQVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 499 KKMEAML 505
K+++ L
Sbjct: 367 KQLKDFL 373
>gi|186684216|ref|YP_001867412.1| RNA polymerase sigma factor [Nostoc punctiforme PCC 73102]
gi|186466668|gb|ACC82469.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 327
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 94/305 (30%), Positives = 173/305 (56%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LLT + + K+++ ++L D K L ++L EP M + A ++ S
Sbjct: 20 VRTYLREIGRVPLLTREQEIVYGKQVQQMMTLIDAKEVLAKKLHREPDMSEWADVVQQSE 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
E+Q + + A++K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 80 TEVQQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPM 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
+G+K STY YWWIRQ ++RA+ + RT+RLP H+ E+L I+ + L + G +P+
Sbjct: 140 RGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPTPAE 199
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN--NPWHGV 429
IA+ L + ++R + SLD + G+ + + + ++ +P +
Sbjct: 200 IAKELELEPAQIREYLNMARQPVSLDVKV--------GDNQDTELQEMLEDSGPSPEYYT 251
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ L+ ++N L + L ++RE++ L +GL D ++ + +R+ LSRERVRQ+ A
Sbjct: 252 NQEFLRQDLNNL-LAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQA 310
Query: 489 LEKLK 493
L L+
Sbjct: 311 LAHLR 315
>gi|385682350|ref|ZP_10056278.1| RNA polymerase sigma factor SigB [Amycolatopsis sp. ATCC 39116]
Length = 341
Score = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 102/310 (32%), Positives = 170/310 (54%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL+ A+ V L+K+I+ G+ H L +L + R EL
Sbjct: 48 YLNGIGKTALLSAADEVELAKRIEAGV-FAQHMLDTAPKLSPQ------------RRKEL 94
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGF
Sbjct: 95 EALVRDGHKAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGF 154
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 155 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATNEELAA 214
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
++ +KV + + SLD + G+ +I D+ + V L
Sbjct: 215 ESGIAVEKVADLLDHARDPVSLDMPVGTDEDAPLGD----FIEDSEA-TDAESAVISGLL 269
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL ERE+++IR+ YGLD + T + I K GLSRERVRQ+ + KL+
Sbjct: 270 QDDLRR-VLATLDEREQQVIRMRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLR 328
Query: 494 HAARKKKMEA 503
R +++ A
Sbjct: 329 QGERAERLRA 338
>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 = 157 bits (397), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 104/310 (33%), Positives = 167/310 (53%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT E V L+K+I+ G+ H L + L E R EL
Sbjct: 50 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHMLDTSDDLSPE------------RREEL 96
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+I+ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 97 TAIVRDGENAKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGF 156
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 157 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAA 216
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+++ KV + + SLD + G+ +I D+ + V L
Sbjct: 217 ESGIAEAKVASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLL 271
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+
Sbjct: 272 QDDLRR-VLATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMTKLR 330
Query: 494 HAARKKKMEA 503
H R ++ A
Sbjct: 331 HGERADRLRA 340
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|443324962|ref|ZP_21053681.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442795431|gb|ELS04799.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 328
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 171/304 (56%), Gaps = 9/304 (2%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LLT+ + + K+++ ++L K L+++L E S+++ + S +IS
Sbjct: 21 VRSYLHEIGRVPLLTNEQEIVYGKQVQAMMALLIKKSELEKQLEREISLQEWSESAQISE 80
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
PEL +L A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD
Sbjct: 81 PELNRLLKLGQRAKSKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPM 140
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G P+
Sbjct: 141 KGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRNPNPRE 200
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L + ++R + SLD G +T S + ++ + + +
Sbjct: 201 IAAELELETSQIREYLSIARQPISLDVRV-----GDNQDTELSELLEDDGISPDKYATQE 255
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 490
+D N ++ L +RE+I L +GL D + L+ I +R+ LSRERVRQ+ AL
Sbjct: 256 LLRQDLYN--LMADLTPPQREVISLRFGLEDGKELSLAKIGQRMSLSRERVRQLEHQALA 313
Query: 491 KLKH 494
+L+
Sbjct: 314 QLRR 317
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 101/293 (34%), Positives = 167/293 (56%), Gaps = 19/293 (6%)
Query: 218 IKTGLSLDDH-KLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+ G+S+DD ++ LKE +G P + L R E+ +LA+++L +N+RL
Sbjct: 91 VPKGVSVDDPVRMYLKE-IGKIPLLTGEEEVLIAKRMEIGE-----NLAKKELAEANLRL 144
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+ +
Sbjct: 145 VVSIAKRYVGRGMSFLDLIQEGNLGLMKAVEKFDYTKGFKFSTYATWWIRQAITRAIADQ 204
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + L+R + ++E G PS + IA+ +++ +KVR + + S
Sbjct: 205 ARTIRIPVHMVETINKLVRVQRQLVQELGRDPSPEEIAQEMSLDVEKVREIQKIAQEPVS 264
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVNKLIIVTLGEREREI 453
L+ GE S++ D + D + L E + ++ TL ERE+++
Sbjct: 265 LETPI--------GEEEDSHLGDFIPDEEILSPSDAATFTLLKEQLETVLETLTEREKKV 316
Query: 454 IRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ L +GL D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 317 LTLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDFL 369
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 220 EAEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTY 279
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G P + I + L+M+
Sbjct: 280 ATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPLPEEIGKELHMT 339
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKD 436
KVR +V + +E SL GE S++ D + V +P + L++
Sbjct: 340 PDKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLRE 391
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHA 495
++++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 392 QLDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHP 450
Query: 496 ARKKKM 501
R K +
Sbjct: 451 RRSKPL 456
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|357974097|ref|ZP_09138068.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. KC8]
Length = 672
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 96/285 (33%), Positives = 166/285 (58%), Gaps = 23/285 (8%)
Query: 233 ERLGCEPSMEQLAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYD 285
ER+ E S ++ + +S PE + I+ E +A++++V +N+RLV+SIA++Y
Sbjct: 397 ERIRAEIS--EIGQATGMSLPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYT 454
Query: 286 NMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNH 345
N G DL+Q G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H
Sbjct: 455 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 514
Query: 346 LHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSL 404
+ E + L+R ++ L E G P+ + +AE L+M +KVR KV + +E SL
Sbjct: 515 MIETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVR-------KVMKIAKEPI-SL 566
Query: 405 NGLPGETHHSYIADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLD 461
G+ S++ D + N VD LK+ V + ++ +L RE ++R+ +G+
Sbjct: 567 ETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIG 625
Query: 462 KEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ ++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 626 MNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 670
>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 (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 153/250 (61%), Gaps = 16/250 (6%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 344 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 403
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 404 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 463
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 436
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 464 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 514
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 515 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 573
Query: 496 ARKKKMEAML 505
+R KK+++ +
Sbjct: 574 SRAKKLKSFV 583
>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 (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 197 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWW 256
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IA+ +NM ++V
Sbjct: 257 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVERV 316
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 317 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIKDDNVPVPADAAAFTLLKEQLEE 368
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++ L +GL D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 369 -VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 427
Query: 500 KMEAML 505
K++ L
Sbjct: 428 KLKDYL 433
>gi|116514229|ref|YP_813135.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp.
bulgaricus ATCC BAA-365]
gi|116093544|gb|ABJ58697.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus delbrueckii
subsp. bulgaricus ATCC BAA-365]
Length = 372
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 98/291 (33%), Positives = 167/291 (57%), Gaps = 19/291 (6%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R S E++A + RI + + A+++L +N+RL
Sbjct: 95 TGMKMNDPVRMYLKEIGRFNLLTSEEEVALAKRIEAGDEE--------AKQELAEANLRL 146
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G + DL+Q G +GL++ ++KFD GFK STY WWIRQ ++RA+ +
Sbjct: 147 VVSIAKRYVGRGMNFLDLIQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQ 206
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + IA +++ KKVR A + + S
Sbjct: 207 ARTIRIPVHMVETINKLIRIQRQFLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQEPVS 266
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIR 455
L+ + G ++H +++ +P LKD++ + ++ TL +RE ++R
Sbjct: 267 LE-----TPIGEEDDSHLGDFIEDKDATSPEQHAASEMLKDQLAE-VLDTLTDREENVLR 320
Query: 456 LYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
L +GLD T E++ + G++RER+RQ+ AL KL+H +R K+ L
Sbjct: 321 LRFGLDDGNPRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSNKLRDFL 371
>gi|374296445|ref|YP_005046636.1| RNA polymerase, sigma 38 subunit, RpoS [Clostridium clariflavum DSM
19732]
gi|359825939|gb|AEV68712.1| RNA polymerase, sigma 38 subunit, RpoS [Clostridium clariflavum DSM
19732]
Length = 359
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 175/301 (58%), Gaps = 27/301 (8%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKL 269
L + G+S+DD ++ LKE +G P + E++ + R+ + +++ A+++L
Sbjct: 76 LDLSVPEGISIDDPVRMYLKE-IGKVPLLSADEEIELAKRMEKGDVE--------AKKRL 126
Query: 270 VMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGV 329
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ +
Sbjct: 127 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAI 186
Query: 330 SRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 388
+RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR
Sbjct: 187 TRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGKEPQPEEIAKEMNMPVEKVR---- 242
Query: 389 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVT 445
++ + +E SL GE S++ D +++ P LK+++ ++ T
Sbjct: 243 ---EIMKISQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLID-VLDT 297
Query: 446 LGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++
Sbjct: 298 LTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDY 357
Query: 505 L 505
L
Sbjct: 358 L 358
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
+A+ +L+ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 346 ARIAKSELIEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 405
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IA+ + +
Sbjct: 406 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQENGREPSPEEIADRMQLPL 465
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 436
KVR KV + +E SL GE S++ D +E+ NP V L +
Sbjct: 466 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVNPLEAVIKANLSE 516
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 517 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 575
Query: 496 ARKKKMEAML 505
+R KK+++ +
Sbjct: 576 SRSKKLKSFV 585
>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 (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 148/245 (60%), Gaps = 10/245 (4%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 131 VAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 190
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 191 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKL 441
VR + + SL+ + G ++H +I D V++ H + L E +
Sbjct: 251 VREILKIAQEPVSLE-----TPIGEEDDSHLGDFIEDQEVQSPSDHAA--YELLKEQLED 303
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 304 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 363
Query: 501 MEAML 505
++ +
Sbjct: 364 LKDFM 368
>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 = 1e-35, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 152/251 (60%), Gaps = 19/251 (7%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 158 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 217
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 382
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 218 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 277
Query: 383 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 437
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 278 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 327
Query: 438 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 328 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 386
Query: 497 RKKKMEAMLVK 507
R K+++ + K
Sbjct: 387 RSKRLKDFVDK 397
>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 (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 108/318 (33%), Positives = 183/318 (57%), Gaps = 29/318 (9%)
Query: 199 GVVSEELLTH--AEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISR 252
GV +EL E+ ++ + G+S+DD ++ LKE +G P + E++ + R+
Sbjct: 85 GVSDDELKKEDDIEMDKIDLSLPKGISIDDPVRMYLKE-IGKIPLLKPHEEIEYAKRM-- 141
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L +A+++LV +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD
Sbjct: 142 ------LEGDEIAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYE 195
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+GFK STY WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P +
Sbjct: 196 RGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPKPEE 255
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA+ ++MS++KVR + SL+ GE S++ D + + +
Sbjct: 256 IAKEMDMSEEKVREIMKIAQDPVSLETPI--------GEEEDSHLGDFIPDEDALAPAEA 307
Query: 432 WA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLV 487
A LKD++ + ++ +L ERE+++++L +GL D T E++ K ++RER+RQ+
Sbjct: 308 AAYSLLKDQIEE-VLGSLNEREQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAK 366
Query: 488 ALEKLKHAARKKKMEAML 505
AL KL+H +R KK+ L
Sbjct: 367 ALRKLRHPSRSKKLRDYL 384
>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 (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 439 RSKPLRDFM 447
>gi|406984762|gb|EKE05675.1| hypothetical protein ACD_19C00182G0003 [uncultured bacterium]
Length = 359
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL SN+RLV+SIA++Y G + DL+Q G GL+R +EK+D KGFK STY WW
Sbjct: 122 AKDKLTESNLRLVVSIAKKYIGRGLSLLDLIQEGNQGLIRAVEKYDWRKGFKFSTYATWW 181
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L R ++ ++E G P+ + I + ++ +V
Sbjct: 182 IRQAITRAIADQARTIRIPVHMVETINKLYRISRRLMQELGREPTPEEIGAEVELTADRV 241
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++F + +E SL GE S + D + + VD + LKD +++
Sbjct: 242 R-------EIFKIAQET-TSLEAPVGEDQESILGDFIPDESQLSPVDQASKQLLKDHLDE 293
Query: 441 LIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE ++++L +GL+ + +T E++ K G++RER+RQ+ AL KLKH +R+K
Sbjct: 294 -VLGTLTEREAKVLKLRFGLEGTKQMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRRK 352
Query: 500 KMEAML 505
K++ L
Sbjct: 353 KLQDYL 358
>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 = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 170/293 (58%), Gaps = 25/293 (8%)
Query: 221 GLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLV 277
G+ ++D ++ LKE R+ + E++A +L+I + + + A+++L +N+RLV
Sbjct: 95 GIKINDPVRMYLKEIGRVPLLTADEEVALALKIEQGDGE--------AKQRLAEANLRLV 146
Query: 278 MSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 337
+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +
Sbjct: 147 VSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQA 206
Query: 338 RTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 396
RT+R+P H+ E + LIR + L++ G P+ + I ++M KVR ++ +
Sbjct: 207 RTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTDKVR-------EILKI 259
Query: 397 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGEREREI 453
+E SL GE S++ D + + D A LK+++ ++ TL +RE +
Sbjct: 260 AQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLES-VLDTLTDREENV 317
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 318 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 370
>gi|307152078|ref|YP_003887462.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC
7822]
gi|306982306|gb|ADN14187.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7822]
Length = 328
Score = 157 bits (396), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 97/314 (30%), Positives = 181/314 (57%), Gaps = 17/314 (5%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P + ++ Y+ + LLTH + + K+++ ++L + K L +L EPS+ + A
Sbjct: 13 PTFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDELAIQLEREPSLTEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
+++S EL + + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 NHVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE--- 362
+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +
Sbjct: 133 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQQLG 192
Query: 363 KGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVE 422
+ TPS IA+ L++ ++R + S+ R+ SL+ G+ + +++ +
Sbjct: 193 RSATPS--EIAKALDLEPDQIR-------EFLSMSRQPI-SLDVRVGDNQDTELSELLED 242
Query: 423 N--NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRE 479
+P + + ++ ++ L + L ++RE++ L +GL D + L+ I +R+ +SRE
Sbjct: 243 EGISPDNYITQELMRQDLQDL-LAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRE 301
Query: 480 RVRQVGLVALEKLK 493
RVRQ+ AL +L+
Sbjct: 302 RVRQLEHQALSQLR 315
>gi|295098975|emb|CBK88064.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium cylindroides
T2-87]
Length = 368
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 114/325 (35%), Positives = 184/325 (56%), Gaps = 33/325 (10%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
I + +K Y+K + LL E ++K+I+ G + K++L EP ++
Sbjct: 67 INDPVKMYLKEIGQIPLLDPKEEPIIAKRIQDGEAA-------KKKLE-EPDLDIE---- 114
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
R +L S++ + A++ L+ SN+RLV+SIA++Y G DL+Q G GL++ +EK
Sbjct: 115 --ERKKLASVVADGEEAKQVLISSNLRLVVSIAKKYVGRGMLFLDLIQEGNCGLIKAVEK 172
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
FD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + +++ G P
Sbjct: 173 FDYTKGFKFSTYATWWIRQSITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDP 232
Query: 368 SVDRIAEYL-NMSQKKVRNATEAIGKVFSLDREAFP-SLNGLPGETHHSYIADNRVENNP 425
+ IAE + N++ KVR I K+ +LD P SL GE S++ D +E+
Sbjct: 233 LPEEIAEKMENITADKVRE----IQKI-ALD----PVSLETPIGEEDDSHLGD-FIEDKE 282
Query: 426 WHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRER 480
DD+ LKDE+N ++ L ERE +++RL +GL D T E++ K ++RER
Sbjct: 283 TLSPDDYTNNQLLKDEINN-VLQGLTEREEKVLRLRFGLMDGRTRTLEEVGKEFNVTRER 341
Query: 481 VRQVGLVALEKLKHAARKKKMEAML 505
+RQ+ AL KLKH R K+++ +
Sbjct: 342 IRQIEAKALRKLKHPNRSKRLKDFV 366
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A KLV +N+RLV+SIA+RY G DLVQ G +GL++ +EKFD +KG+++STY WW
Sbjct: 170 AGRKLVEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLMKAVEKFDYAKGYRLSTYATWW 229
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
++Q ++R+L + SRT+RLP H+ E + IR A+ L + G PS + +AE + +K+V
Sbjct: 230 VKQSITRSLADQSRTIRLPVHMVEAVNKIRRAQRSLSVRLGREPSTEEVAEEVGFPEKRV 289
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+A G SL+ + G ++AD+ + + + L++E++ + +
Sbjct: 290 IELIQASGDTVSLE----TPVGDEEGSNLGDFVADD-ANASTEDKAESFLLREEIDAM-L 343
Query: 444 VTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
L RERE+I L +GL+ LT E++ KR ++RER+RQ+ AL KL++ ++ +K+
Sbjct: 344 QGLNPREREVIILRFGLETGHPLTLEEVGKRFNVTRERIRQIETAALRKLRNPSKSRKIR 403
Query: 503 AML 505
L
Sbjct: 404 DFL 406
>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 = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 152/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 132 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ L+M ++V
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKELDMPVERV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 252 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 303
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 304 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 362
Query: 500 KMEAML 505
K+ L
Sbjct: 363 KLRDYL 368
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 156 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 215
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 382
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 216 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 275
Query: 383 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 437
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 276 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 325
Query: 438 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 326 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 384
Query: 497 RKKKMEAMLVK 507
R K+++ + K
Sbjct: 385 RSKRLKDFVDK 395
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/323 (32%), Positives = 183/323 (56%), Gaps = 31/323 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT A+ V L+ KI+ GL +KL + A
Sbjct: 137 LTGDPVRMYLKEIGKVDLLTAADEVDLAMKIEAGLEAS-NKLEAAD-----------AGE 184
Query: 248 LRISRPELQSI--LMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
+ ++R E++ + + + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R
Sbjct: 185 IELTRAEMRRLTRVEQVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIR 244
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++
Sbjct: 245 AVEKFDYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDL 304
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G P+ + I ++MS +VR ++ + +E SL GE S + D +E+
Sbjct: 305 GRDPTPEEIGAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IED 355
Query: 424 N----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
+ P L++++ + ++ +L +RER++I L +GL D T E++ + G++R
Sbjct: 356 SQAVVPPEAASFSMLQEQLTQ-VLDSLADRERKVIELRFGLVDGHPRTLEEVGREFGVTR 414
Query: 479 ERVRQVGLVALEKLKHAARKKKM 501
ER+RQ+ L KL+H +R K+
Sbjct: 415 ERIRQIESKTLAKLRHPSRSSKL 437
>gi|2564653|gb|AAC45358.1| group 2 alternative sigma factor [Nostoc punctiforme PCC 73102]
Length = 321
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/294 (30%), Positives = 169/294 (57%), Gaps = 9/294 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+K + LLT + + +++++ +++ +L L P++ + A +++S
Sbjct: 22 VRAYLKEIGRIPLLTQEQEIIFAQEVQQLMTILAESEKLTIELKRTPTLSEWANQMQLSE 81
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL L + A+ K++ +N+RLV+SIA++Y ++ DL+Q G +GL RG+EKF+ +
Sbjct: 82 QELLQQLNQGKKAKHKMITANLRLVVSIAKQYQRRNLELMDLIQEGTLGLERGVEKFNPA 141
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDR 371
G++ +TY YWWIRQG++RA+ + R +RLP H++E+L I+ + L + G P+
Sbjct: 142 LGYRKTTYAYWWIRQGITRAIAQQGRAIRLPIHINEKLNKIKRVQRELSQTLGRIPTSTE 201
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
IA L++ ++R + SLD ++ I D + +N + + +
Sbjct: 202 IANALSLKPSQIREFLLLATRTISLD----IRVSSAKDLRLQDLIEDYKYSSNSY--ITE 255
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQV 484
+L EVN L + L +++EI+ L++GL D E L+ + I +R+G+SRERVRQ+
Sbjct: 256 ESLNQEVNSL-LSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQI 308
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>gi|352093658|ref|ZP_08954829.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351679998|gb|EHA63130.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 321
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 96/306 (31%), Positives = 181/306 (59%), Gaps = 10/306 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEP-SMEQLAASLRIS 251
++ Y++ + LL+H + + L ++++ + L+ + LK++ G + + E++A + +S
Sbjct: 13 VRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKDQRGEDQVAREEVAKAAGVS 72
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD
Sbjct: 73 AAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDP 132
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVD 370
++G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TPSV
Sbjct: 133 TRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVT 192
Query: 371 RIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD 430
+A ++ + +++V++ + SL+ + +G E D + P V+
Sbjct: 193 ELASFVELPEEEVKDLMCRARQPVSLEMKVG---DGDDTELLELLAGDGEL---PSEQVE 246
Query: 431 DWALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVAL 489
LK ++ L + L E + +++R+ YG+D +E ++ I+K + +SR+R R++ L
Sbjct: 247 GECLKGDLRDL-LSQLPELQGKVLRMRYGMDGEEPMSLTGIAKSMKMSRDRTRRLEREGL 305
Query: 490 EKLKHA 495
E L+
Sbjct: 306 EMLRRG 311
>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 = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 439 RSKPLRDFM 447
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 152/250 (60%), Gaps = 14/250 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 441 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 500
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 501 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 560
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 561 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 612
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 613 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 671
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 672 SRSRKMRSFL 681
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 147/249 (59%), Gaps = 16/249 (6%)
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
AR +L +N+RLV+S+A++Y G M DLVQ G +GL+R +EKF KGFK STY
Sbjct: 298 DFARMRLTEANLRLVVSVAKKYVGRGMSMLDLVQEGNLGLIRAVEKFQHHKGFKFSTYAT 357
Query: 323 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 381
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ +E+G P+ + IA + M+
Sbjct: 358 WWIRQAITRAIADQARTIRIPVHMVETINRLIRTSRRLQQERGREPTSEEIAAEMGMAPD 417
Query: 382 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 437
K+R ++ + +E SL GE S + D +E++ D A LK++
Sbjct: 418 KIR-------EIMKISQEPV-SLEMPIGEEEDSNLGDF-IEDHKALAPSDAASHKMLKEQ 468
Query: 438 VNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
V ++ +L ERER ++ L +GLD T E++ + G++RER+RQ+ AL KL+H +
Sbjct: 469 VED-VLGSLSERERRVLELRFGLDDGRSRTLEEVGREFGVTRERIRQIEAKALRKLRHPS 527
Query: 497 RKKKMEAML 505
R KK+ L
Sbjct: 528 RSKKLRDYL 536
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 178/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +H L+ EQ + + + +R
Sbjct: 317 VKDYLKQIGKVALLNAEQEVNLAKRIEAGL-YAEHLLK----------TEQDSMTPKHAR 365
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD S
Sbjct: 366 -ELHWVVQDGVNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 424
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 425 KGYKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDE 484
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A L+M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 485 LARELDMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 535
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + YGL D T +DI R G++RER+RQ+
Sbjct: 536 AVSFVMLQEQLQR-VLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIES 594
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 595 KTMSKLRHPARSQSLRDYL 613
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 174/317 (54%), Gaps = 27/317 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ L+ Y++ + LLT + V+L+++I+ G +EQ A L
Sbjct: 93 DTLETYLREMGRVPLLTSEQEVQLAQQIERG------------------KLEQERARLLK 134
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
PE +I+ AR++L +N+RLV+SIA++Y G +ADL+Q G GL+ +EKFD
Sbjct: 135 VPPE-HAIMDSAQNARDRLTEANLRLVVSIARKYMGRGMALADLIQEGNAGLMLAVEKFD 193
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
++GFK STY WWIRQ ++RA+ +RT+RLP H HE + L R + +E G PS
Sbjct: 194 YTRGFKFSTYATWWIRQAINRAIANQARTIRLPVHFHEAVNRLHRTSSQLFQELGREPSA 253
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
+ IAE +++S V + EA + SL+ S G G++ +++V +P
Sbjct: 254 EEIAERMHISVDTVYDILEAGKQPISLE-----SPVGDDGDSSLGDFVEDQVTASPADIT 308
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVA 488
L++++ ++ L ERER II+ ++G LD + T +I + + LSRERVRQ+ A
Sbjct: 309 TRNILREQIAH-VLDELNERERHIIQYHFGFLDGKEHTLAEIGENLHLSRERVRQIEAKA 367
Query: 489 LEKLKHAARKKKMEAML 505
L KL+ + ++++ L
Sbjct: 368 LRKLRQSYSSRQLKDFL 384
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/245 (36%), Positives = 148/245 (60%), Gaps = 10/245 (4%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 131 VAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 190
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 191 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETH-HSYIADNRVENNPWHGVDDWALKDEVNKL 441
VR + + SL+ + G ++H +I D V++ H + L E +
Sbjct: 251 VREILKIAQEPVSLE-----TPIGEEDDSHLGDFIEDQEVQSPSDHAA--YELLKEQLED 303
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 304 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 363
Query: 501 MEAML 505
++ +
Sbjct: 364 LKDFM 368
>gi|443663597|ref|ZP_21133167.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa
DIANCHI905]
gi|159027100|emb|CAO89285.1| rpoD [Microcystis aeruginosa PCC 7806]
gi|443331874|gb|ELS46514.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa
DIANCHI905]
Length = 328
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/311 (33%), Positives = 175/311 (56%), Gaps = 11/311 (3%)
Query: 186 PELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
P L + ++ Y+ + LLTH + + K+++ +SL + K L ++LG EP + A
Sbjct: 13 PTLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQHLEWA 72
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
S+ +S EL L A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG
Sbjct: 73 DSVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERG 132
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-G 364
+EKFD +KG+K STY YWWIRQ ++RA+ + +RT+RLP H+ E+L I+ + L +K G
Sbjct: 133 VEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLG 192
Query: 365 VTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHS-YIADNRVEN 423
+ + IA L++ ++R + SLD G +T S + D+ V
Sbjct: 193 RSATPAEIALELDLEPAQIREYLSMARQPISLDVRV-----GDNQDTELSELLEDSGV-- 245
Query: 424 NPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVR 482
+P + L+ ++ L + L ++RE+I L +GL D + L+ I +R+ +SRERVR
Sbjct: 246 SPDTFITQELLRQDLANL-LAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVR 304
Query: 483 QVGLVALEKLK 493
Q+ AL L+
Sbjct: 305 QLEHQALAHLR 315
>gi|188996275|ref|YP_001930526.1| RpoD subfamily RNA polymerase sigma-70 subunit
[Sulfurihydrogenibium sp. YO3AOP1]
gi|188931342|gb|ACD65972.1| RNA polymerase, sigma 70 subunit, RpoD family [Sulfurihydrogenibium
sp. YO3AOP1]
Length = 590
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 94/287 (32%), Positives = 166/287 (57%), Gaps = 16/287 (5%)
Query: 222 LSLDDHKLRLKERLGCEPS-MEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSI 280
L L D +K+++G PS + + +++ R E+ ++ ++ LV +N+RLV+SI
Sbjct: 314 LKLKDEIEEIKQKIGTIPSEFDHVLDLIQLGRNEINNV-------KQVLVKANLRLVVSI 366
Query: 281 AQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTL 340
A++Y N G DL+Q G IGL++ ++K+D KGFK STY WWIRQ ++RA+ + +RT+
Sbjct: 367 AKKYTNRGLQFLDLIQEGNIGLMKAVDKYDYKKGFKFSTYATWWIRQAITRAIADQARTI 426
Query: 341 RLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDRE 399
R+P H+ E + L+R ++ ++E G P+ + IA+ M KVR S D
Sbjct: 427 RIPVHMIETINKLLRISRTLVQELGREPTPEEIAKKAGMPADKVRKILRT-----SQDPV 481
Query: 400 AFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 459
+ + G E+H +++ +P + AL+ ++++ ++ TL ERE +++R +G
Sbjct: 482 SLETPIGSDEESHLGDFIEDKTVLSPEQHMLKQALRLQLDE-VLSTLSEREEQVLRYRFG 540
Query: 460 LDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
L+ + T E + KR G++RER+RQ+ AL KL+H R K ++ +
Sbjct: 541 LEDDTEHTLEQVGKRFGVTRERIRQIEAKALRKLRHPHRAKYLKPFI 587
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 106/323 (32%), Positives = 182/323 (56%), Gaps = 31/323 (9%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + +LLT +E V L+ KI+ GL + KL + A
Sbjct: 148 LTGDPVRMYLKEIGKVDLLTASEEVDLAMKIEAGLEATE-KLEAAD-----------AGE 195
Query: 248 LRISRPELQSI--LMECSL-AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
L ++R E++ + + L A++ L+ +N+RLV+SIA+RY G DL+Q G +GL+R
Sbjct: 196 LELTRAEIRRLTRIENVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIR 255
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEK 363
+EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L++
Sbjct: 256 AVEKFDYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDL 315
Query: 364 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN 423
G P+ + I ++MS +VR ++ + +E SL GE S + D +E+
Sbjct: 316 GRDPTPEEIGAEMDMSADRVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IED 366
Query: 424 N----PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSR 478
+ P L++++ + ++ +L +RER++I L +GL D T E++ + G++R
Sbjct: 367 SQAIVPPDAASFSMLQEQLTQ-VLDSLADRERKVIELRFGLVDGHPRTLEEVGREFGVTR 425
Query: 479 ERVRQVGLVALEKLKHAARKKKM 501
ER+RQ+ L KL+H +R K+
Sbjct: 426 ERIRQIESKTLAKLRHPSRSSKL 448
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 117/363 (32%), Positives = 194/363 (53%), Gaps = 48/363 (13%)
Query: 157 RLNSKK------KILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAE 210
RLN+ + KI S S++ +NG R++ +N+ K +SE+ L A
Sbjct: 48 RLNADQIDELYEKIESAGISVVDENGEPTARAL------ENK-----KTKLSEKELKQA- 95
Query: 211 VVRLSKKIKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLARE 267
TG+ ++D ++ LKE R+ E++A + RI + + A++
Sbjct: 96 -----ADAPTGMKINDPVRMYLKEIGRVSLLTGDEEVALAERIEQGD--------ETAKQ 142
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
+L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ
Sbjct: 143 ELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQ 202
Query: 328 GVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNA 386
++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +++ KVR+
Sbjct: 203 AITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIVTDKVRD- 261
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLII 443
+ + +E SL GE S++ D +N D A LK+++ ++
Sbjct: 262 ------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYQMLKEQLES-VL 313
Query: 444 VTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKME 502
TL +RE ++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++
Sbjct: 314 DTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLR 373
Query: 503 AML 505
L
Sbjct: 374 DFL 376
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/246 (36%), Positives = 151/246 (61%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 181 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYATWW 240
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IA+ +NM ++V
Sbjct: 241 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAKEMNMPVERV 300
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 301 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIKDDNVPVPADAAAFTLLKEQLEE 352
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++ L +GL D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 353 -VLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 411
Query: 500 KMEAML 505
K++ L
Sbjct: 412 KLKDYL 417
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 343 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 402
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 403 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 462
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 436
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 463 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 513
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 514 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 572
Query: 496 ARKKKMEAML 505
+R KK+++ +
Sbjct: 573 SRAKKLKSFV 582
>gi|428217032|ref|YP_007101497.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudanabaena sp.
PCC 7367]
gi|427988814|gb|AFY69069.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena sp.
PCC 7367]
Length = 346
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/342 (30%), Positives = 193/342 (56%), Gaps = 17/342 (4%)
Query: 160 SKKKILSQNKSILQQNGSKQLRS----MISPELIQNRLKGYVKGVVSEELLTHAEVVRLS 215
S+KK + + GS RS + P + + ++ Y+ + LLT E +
Sbjct: 2 SRKKSIQAKAGVRSATGSATERSADKGVARPGVSADMVRTYLHEIGKIPLLTSEEEIIFG 61
Query: 216 KKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVR 275
K+++ + L + L E+L +P+ + A ++ EL+ I+ + + ++ K++ +N+R
Sbjct: 62 KRVQQLMRLSELYEDLAEQLDRQPTQAEWADKAGLNIEELEQIVRDGTRSKRKMIEANLR 121
Query: 276 LVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVE 335
LV+S+A++Y ++ DLVQ G +GL R ++KFD +KGFK STY YWWIRQ ++RA+ +
Sbjct: 122 LVVSVAKKYQKRNLELLDLVQEGTLGLERAVDKFDPTKGFKFSTYAYWWIRQAITRAIAQ 181
Query: 336 NSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVF 394
+RT+RLP H+ E+L I+ A+ +L + G + IA+ L + ++VR +
Sbjct: 182 QARTIRLPVHITEKLNKIKKAQRQLSQSLGRVATAAEIADALKLKPEQVR-------EFL 234
Query: 395 SLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
S+ R+ SL+ G+ + +A+ ++P +L+D++ L++ L ++RE
Sbjct: 235 SMARQPV-SLDLRIGDNQDTELAELLEDEGDSPESFALSESLRDDIAGLLL-DLTPKQRE 292
Query: 453 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
++ + YGL D + ++ ISKR+ LSRE+VRQ+ A++ L+
Sbjct: 293 VMIMRYGLEDGKEMSLASISKRMELSREQVRQLERQAMDSLR 334
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 173 AKQQLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 232
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++M +KV
Sbjct: 233 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPAPEEIGAEMDMPTEKV 292
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D +N+ D A LK+++
Sbjct: 293 R-------EILKIAQEPV-SLETPIGEEDDSHLGDFIEDNDATSPADHAAYELLKEQLEG 344
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K
Sbjct: 345 -VLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSK 403
Query: 500 KMEAML 505
+++ L
Sbjct: 404 QLKDFL 409
>gi|67924587|ref|ZP_00518002.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|67853561|gb|EAM48905.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
Length = 328
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 172/305 (56%), Gaps = 13/305 (4%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y+ + LLTH + + K+++ ++ + K L ++LG EP++++ + L I +
Sbjct: 20 VRTYLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLGKEPTVKEWSKELEIEQ 79
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
L L + A+ K++ +N+RLV++IA++Y + DL+Q G +GL RG+EKFD +
Sbjct: 80 KALNQALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPT 139
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE---KGVTPSV 369
KG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L I+ + L + + TPS
Sbjct: 140 KGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKKTQRELSQTLGRSATPS- 198
Query: 370 DRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGV 429
IA+ L + ++R + SLD G +T S + +++ + +
Sbjct: 199 -EIAQELEIEPSQIREFLSIARQPISLDVRV-----GDNQDTELSELLEDQGVSPDLYIT 252
Query: 430 DDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVA 488
+ +D N ++ L ++R ++ L +GL D + L+ I KR+ +SRERVRQ+ A
Sbjct: 253 QELLRQDLRN--LMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQLEHQA 310
Query: 489 LEKLK 493
L +L+
Sbjct: 311 LAQLR 315
>gi|352518192|ref|YP_004887509.1| RNA polymerase sigma factor RpoD [Tetragenococcus halophilus NBRC
12172]
gi|348602299|dbj|BAK95345.1| RNA polymerase sigma factor RpoD [Tetragenococcus halophilus NBRC
12172]
Length = 368
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 107/345 (31%), Positives = 188/345 (54%), Gaps = 45/345 (13%)
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDH-K 228
S++ +NG LRS+ + E ++ E R + TG+ ++D +
Sbjct: 59 SVVDENGEPSLRSLKTTEKVEK------------------EKPRDDLSVPTGVKINDPVR 100
Query: 229 LRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDN 286
+ LKE R+ + E++ +L+I + + A+++L +N+RLV+SIA+RY
Sbjct: 101 MYLKEIGRVSLLTAEEEVDLALKIEEGDQE--------AKQRLAEANLRLVVSIAKRYIG 152
Query: 287 MGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHL 346
G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+
Sbjct: 153 RGMQFLDLIQEGNMGLMKAVEKFDHRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 212
Query: 347 HERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLN 405
E + LIR + L++ G P+ + I +++ +KVR ++ + +E SL
Sbjct: 213 VETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILKIAQEPV-SLE 264
Query: 406 GLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVNKLIIVTLGEREREIIRLYYGLD 461
GE S++ D +E+ D A LK+++ ++ TL +RE ++RL +G+D
Sbjct: 265 TPIGEEDDSHLGDF-IEDQEATSPSDHAAYELLKEQLED-VLDTLTDREENVLRLRFGID 322
Query: 462 K-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 323 DGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 94/249 (37%), Positives = 150/249 (60%), Gaps = 18/249 (7%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
LAR++LV +N+RLV+SIA+RY G + DL+Q G +GL++G+EKF+ KGFK+STY W
Sbjct: 158 LARQRLVEANLRLVVSIAKRYTGRGMSILDLIQEGNLGLMKGVEKFEPDKGFKLSTYATW 217
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLE-EKGVTPSVDRIAEYLNMSQKK 382
WIRQG++RAL + SRT+R+P H+ E + + + RL E G PS +A LNM+++K
Sbjct: 218 WIRQGITRALADQSRTIRVPVHMVESINKVTRTQRRLTLELGYEPSPKELAASLNMTEEK 277
Query: 383 VRNATEAIGKVFSLDREAFP-SLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDE 437
++ LD P SL G+ S ++AD ++ +P + L++E
Sbjct: 278 LKEI---------LDVSKQPTSLETPVGDEEDSNLSDFVADEKM-ISPEQNAANVMLREE 327
Query: 438 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
++KL + L +RER+++ +GL +E T E++ + G++RERVRQ+ AL+K+
Sbjct: 328 IDKL-LENLKDRERDVLIHRFGLHGEESHTLEEVGQMFGVTRERVRQIEAKALKKISLPK 386
Query: 497 RKKKMEAML 505
K + L
Sbjct: 387 YKNALAGFL 395
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/242 (37%), Positives = 150/242 (61%), Gaps = 14/242 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 133 AKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS IA+ +++ ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPQEIADEMDIPVERV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++N+
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAFTLLKEQLNE 304
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLGTLTEREQKVLKLRFGLEDGRARTLEEVGKVFNVTRERIRQIEAKALRKLRHPSRSR 363
Query: 500 KM 501
K+
Sbjct: 364 KL 365
>gi|256847131|ref|ZP_05552577.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis
101-4-CHN]
gi|256715795|gb|EEU30770.1| RNA polymerase sigma factor RpoS [Lactobacillus coleohominis
101-4-CHN]
Length = 381
Score = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 100/293 (34%), Positives = 168/293 (57%), Gaps = 23/293 (7%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + +++ +LRI + + A+++L +N+RL
Sbjct: 104 TGVKINDPVRMYLKEIGRVNLLTADQEVELALRIEKGD--------ETAKQELAEANLRL 155
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 156 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 215
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P + I ++M KKVR+ +
Sbjct: 216 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMPTKKVRD-------ILK 268
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREI 453
+ +E SL GE S++ D +++ D A + +L ++ TL +RE +
Sbjct: 269 IAQEPV-SLETPIGEEDDSHLGDFIEDHDATSPADHAAYEMMKKQLENVLDTLTDREENV 327
Query: 454 IRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 328 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 380
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 109/324 (33%), Positives = 182/324 (56%), Gaps = 25/324 (7%)
Query: 188 LIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAAS 247
L + ++ Y+K + LLT AE + L+ KI+ G++ + L E G E +
Sbjct: 113 LTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATEE-LEKAEDEGIELERRE---K 168
Query: 248 LRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIE 307
R+ R E I A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +E
Sbjct: 169 RRLGRIEQVGID-----AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVE 223
Query: 308 KFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVT 366
KFD +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G
Sbjct: 224 KFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRE 283
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN-- 424
PS + I + + + ++VR ++ + +E SL GE S + D +E++
Sbjct: 284 PSPEEIGKEMGLPAERVR-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAA 334
Query: 425 --PWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERV 481
P L+++++K ++ L ERER++I L +GL D T E++ + G++RER+
Sbjct: 335 VVPPDAASFSMLQEQLSK-VLDGLAERERKVIALRFGLEDGHPRTLEEVGREFGVTRERI 393
Query: 482 RQVGLVALEKLKHAARKKKMEAML 505
RQ+ L KL+H +R K++ L
Sbjct: 394 RQIESKTLAKLRHPSRSSKLKDYL 417
>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 = 2e-35, Method: Compositional matrix adjust.
Identities = 93/245 (37%), Positives = 146/245 (59%), Gaps = 12/245 (4%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFRKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G PS + IAE +++S +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAEEMDLSPEKV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 441
R ++ + +E SL GE S++ D + + L E K
Sbjct: 255 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIPDDDAQAPADAAAYELLKEQLKD 306
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 307 VLDTLSDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 366
Query: 501 MEAML 505
++ L
Sbjct: 367 LKDFL 371
>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 (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA+RY G DL+Q G +GL+R +EKFD +KGFK STY WW
Sbjct: 154 AKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWW 213
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+R+P H+ E + L+R + L+E G PS + I E + ++ ++V
Sbjct: 214 IRQAITRAIADQSRTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGEKMGLTAERV 273
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 439
R ++ + +E SL GE S + D +E++ P L+++++
Sbjct: 274 R-------EIQKISQEPV-SLETPIGEEEDSQLGDF-IEDDAAIVPPDAASFSMLQEQLS 324
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ L ERER++I L +GL D T E++ ++ G++RER+RQ+ L KL+H +R
Sbjct: 325 K-VLDGLAERERKVISLRFGLEDGHPHTLEEVGRQFGVTRERIRQIESKTLAKLRHPSRS 383
Query: 499 KKMEAML 505
K++ L
Sbjct: 384 SKLKDYL 390
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 131 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 190
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 191 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 251 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 301
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 302 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 360
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 361 SKRLKDFM 368
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/311 (35%), Positives = 169/311 (54%), Gaps = 27/311 (8%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT A+ V LSK+I+ GL H L +RL P+ ++ +L
Sbjct: 30 YLNGIGRTALLTAADEVELSKRIEAGLYAA-HILETGKRLS--PAKKR----------DL 76
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ E AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 77 ATVVREGQSARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 136
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K L ++ G + D +AE
Sbjct: 137 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATDDELAE 196
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNR---VENNPWHGVDD 431
+ K+ + + SLD G+ +I D+ EN G+
Sbjct: 197 ESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGD----FIEDSEATSAENAVIAGL-- 250
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALE 490
L +V ++ TL ERE+++IRL YGLD + T + I K GLSRERVRQ+ +
Sbjct: 251 --LHSDVRS-VLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMG 307
Query: 491 KLKHAARKKKM 501
KL+ R +++
Sbjct: 308 KLRQGDRAERL 318
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 90/246 (36%), Positives = 153/246 (62%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 138 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ ++MS ++V
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMDMSVERV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 258 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 309
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 310 -VLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 368
Query: 500 KMEAML 505
K++ L
Sbjct: 369 KLKDYL 374
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++KL+ +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 157 AKKKLISANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLVKAVEKFDYTKGFKFSTYATWW 216
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYL-NMSQKK 382
IRQ ++RA+ + +RT+R+P H+ E + L R + +++ G PS + IA + N+S +K
Sbjct: 217 IRQAITRAIADQARTIRIPVHMVETINKLTRIQRQLVQDLGRDPSAEEIAAKMENISPEK 276
Query: 383 VRNATE-AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDE 437
VR + A+ V SL GE S++ D +E+ D++A LKDE
Sbjct: 277 VREIQKIALEPV---------SLETPIGEEDDSHLGDF-IEDKEALSPDEYANNQLLKDE 326
Query: 438 VNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+N ++ L ERE +++RL +GL D T E++ K ++RER+RQ+ AL KLKH
Sbjct: 327 IN-TVLQGLTEREEKVLRLRFGLYDGRTRTLEEVGKEFNVTRERIRQIEAKALRKLKHPT 385
Query: 497 RKKKMEAMLVK 507
R K+++ + K
Sbjct: 386 RSKRLKDFVDK 396
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA + +S +KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKV 259
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R ++ + +E SL GE S++ D + D A LK+++
Sbjct: 260 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIEDQEALTPADAAAYELLKEQLED 311
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 312 -VLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 370
Query: 500 KMEAML 505
+++ L
Sbjct: 371 RLKDFL 376
>gi|375086568|ref|ZP_09732974.1| RNA polymerase sigma factor rpoD [Megamonas funiformis YIT 11815]
gi|374564707|gb|EHR35989.1| RNA polymerase sigma factor rpoD [Megamonas funiformis YIT 11815]
Length = 378
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 102/297 (34%), Positives = 176/297 (59%), Gaps = 27/297 (9%)
Query: 218 IKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKLVMSN 273
I G+++DD ++ LKE +G P + E++ + R+ +L+ A+++L +N
Sbjct: 99 IPEGINIDDPVRMYLKE-IGRVPLLSADEEIKLAKRMEDGDLE--------AQKRLAEAN 149
Query: 274 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WWIRQ ++RA+
Sbjct: 150 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAI 209
Query: 334 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 392
+ +RT+R+P H+ E + LIR ++ L+ G PS + IA+ +++S +VR +
Sbjct: 210 ADQARTIRIPVHMVETINKLIRVSRQLLQSLGREPSPEEIAKEMDVSVDRVR-------E 262
Query: 393 VFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVTLGER 449
+ + +E SL GE S++ D +++ P LK+++ ++ TL ER
Sbjct: 263 IMKIAQEPV-SLETPIGEEEDSHLGDFIEDHDAPAPAEAASFVLLKEQLED-VLDTLTER 320
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E +++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 321 EEKVLRLRFGLDDGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 377
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 175/306 (57%), Gaps = 18/306 (5%)
Query: 203 EELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMEC 262
+EL+ AE R +K L + KL +E L ++++ +R+ LQ + +
Sbjct: 258 QELVPRAEKNRFAK---AKLLAAERKLTKRE-LAAGRTIDKFKKDVRM----LQRWMDKS 309
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
A+ ++V SN+RLV+SIA++Y N G DL+Q G +GL++ +EKF+ +G+K STY
Sbjct: 310 QEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYAT 369
Query: 323 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 381
WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK + E G P+ + +A L ++ +
Sbjct: 370 WWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGREPTPEELATELGLTPE 429
Query: 382 KVRNATEAIGKVFSLDREAFPSLNGLPGETHH-SYIADNRVENNPWHGVDDWALKDEVNK 440
+VR + SL E G GE+ ++ D +E +P LKD++N+
Sbjct: 430 RVREIYKIAQHPISLQAEV-----GDSGESQFGDFLEDTTIE-SPDEATGYSILKDKMNE 483
Query: 441 LIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RER ++ +G LD + T E++ R ++RERVRQ+ AL K++H R K
Sbjct: 484 -VLSTLTDRERTVLIERFGLLDGKPKTLEEVGVRFKVTRERVRQIEAKALRKMRHPTRSK 542
Query: 500 KMEAML 505
+++A L
Sbjct: 543 QLQAFL 548
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 429 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 488
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E+G P+ + +AE L+M
Sbjct: 489 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMP 548
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 549 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAVIPVDAAIQANLKE 600
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 601 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 659
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 660 SRSRKMRSFL 669
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 98/300 (32%), Positives = 167/300 (55%), Gaps = 31/300 (10%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL +L PS+E+ AA+ ++ EL+ I+ E A++
Sbjct: 113 RLCAKLSHRPSLERWAAAGGVNLAELKQIMAEGKRCWAELANLSVEELKQVQREGIQAKD 172
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD ++G++ STY YWWIRQ
Sbjct: 173 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYSYWWIRQ 232
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ SRT+RLP H+ E+L I+ A+ ++ +EK T ++D IA L M+ ++R
Sbjct: 233 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKSRTATIDDIATELKMTPDQIREV 292
Query: 387 TEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLIIVTL 446
+ + SL+ + G +T + + E+ P + +L E+ I+ L
Sbjct: 293 LLRVPRSVSLETKV-----GTDKDTELGDLLETE-ESTPEELLMRESLYRELQH-ILADL 345
Query: 447 GEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
+ER +I++ YGL D + +I + + LSRERVRQ+ AL+KL+ R+ ++ L
Sbjct: 346 SGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQPKRRNRVRDYL 405
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 179/308 (58%), Gaps = 27/308 (8%)
Query: 207 THAEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMEC 262
T E V + I G+ +DD ++ LKE +G P + E++ + R+ + + +
Sbjct: 77 TPTEDVEIDLSIPEGIGIDDPVRMYLKE-IGRVPLLSPEEEVELAKRMEQGDEE------ 129
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY
Sbjct: 130 --AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYAT 187
Query: 323 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 381
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ +N+S
Sbjct: 188 WWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAKEMNISGD 247
Query: 382 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEV 438
KVR ++ + +E SL GE S++ D + P L++++
Sbjct: 248 KVR-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDADARAPAEEASFTLLREQL 299
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ ++ TL +RE++++RL +GLD T E++ ++ G++RER+RQ+ L KL+H +R
Sbjct: 300 DE-VLKTLTDREQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSR 358
Query: 498 KKKMEAML 505
KK++ L
Sbjct: 359 SKKLKDYL 366
>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 = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 81 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 140
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 141 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 200
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 201 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 251
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 252 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 310
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 311 SKRLKDFM 318
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 110/319 (34%), Positives = 178/319 (55%), Gaps = 28/319 (8%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +H L+ EQ + + + +R
Sbjct: 317 VKDYLKQIGKVALLNAEQEVNLAKRIEAGL-YAEHLLK----------TEQDSMTPKHAR 365
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL ++ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD S
Sbjct: 366 -ELHWVVQDGVNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYS 424
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ D
Sbjct: 425 KGYKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLARVQRQMLQDLGREPTPDE 484
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWH 427
+A L+M+ +KV +V RE SL+ GE S D +E++ P
Sbjct: 485 LARELDMTPEKVV-------EVQKYGREPI-SLHTPLGEDGDSEFGD-LIEDSEAVVPAD 535
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
V L++++ + ++ TL ERE +I + YGL D T +DI R G++RER+RQ+
Sbjct: 536 AVSFVMLQEQLQR-VLDTLSEREAGVIAMRYGLNDGVPKTLDDIGHRYGVTRERIRQIES 594
Query: 487 VALEKLKHAARKKKMEAML 505
+ KL+H AR + + L
Sbjct: 595 KTMSKLRHPARSQSLRDYL 613
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 141 AKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWW 200
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I ++++ +KV
Sbjct: 201 IRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDVATEKV 260
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R+ + + +E SL GE S++ D +N D A LK+++
Sbjct: 261 RD-------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLES 312
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE ++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 313 -VLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 371
Query: 500 KMEAML 505
++ L
Sbjct: 372 QLRDFL 377
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 102/319 (31%), Positives = 180/319 (56%), Gaps = 20/319 (6%)
Query: 189 IQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASL 248
+ + ++ Y++ + LL + V L++ ++ G D + L E +E+LA
Sbjct: 99 VNDTVRLYLREIGLVPLLKGEQEVELARAMEDG---DKAQQELIENDHTLSDVERLALRR 155
Query: 249 RISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEK 308
RI R E ARE L +N+RLV+S+A++Y G + DL+Q G +GL+R +EK
Sbjct: 156 RIDRGEQ---------AREHLTTANLRLVVSVAKKYIGRGLSLLDLIQEGNVGLIRAVEK 206
Query: 309 FDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTP 367
F+ +KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E + ++R A+ +E G P
Sbjct: 207 FNYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMMRTARRLTQENGREP 266
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
S + +A+ L+++ +KVR+ + + SL+ + G+ ++ D ++E P
Sbjct: 267 SDEELAQALDLTVEKVRSIRKTSMEPVSLETPVGQEEDSQLGD----FLPDEKLE-APSD 321
Query: 428 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGL 486
L+++V + ++ L ERE+ +++L +GL D T E++ K G++RER+RQ+ +
Sbjct: 322 AASHQMLREQVAQ-VLDQLTEREKRVLKLRFGLEDGTQRTLEEVGKEFGVTRERIRQIEV 380
Query: 487 VALEKLKHAARKKKMEAML 505
AL KL+H KK+ L
Sbjct: 381 KALRKLRHPRFGKKLRDYL 399
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 174/312 (55%), Gaps = 21/312 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y++ + LL A+ V LSK+++ GL +HKL E LG + R +L
Sbjct: 129 YLREIGRVPLLNAAQEVELSKRVEAGL-FAEHKLATAEELGTD------------LRRDL 175
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ + A+++LV +N+RLV+S+A++Y G + DLVQ G +GL+R +EKFD +KG+
Sbjct: 176 KQLVRDGEAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYAKGY 235
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ + RAL + +RT+R+P H+ E++ I + +L G P+ + +A
Sbjct: 236 KFSTYATWWIRQAIGRALADQARTIRIPVHVVEQINKITRLQRQLVSTLGREPTDEELAL 295
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
L+M ++V + ++ D + + G G++ ++ +P A+
Sbjct: 296 ELDMPLEQVVEL-----RRYAQDTVSLETGVGDDGDSVLGDFIEDADATSPADAASYGAM 350
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+DE++ ++ L RERE++RL +GL D + T ++ R+GL+RER+RQ+ L +L+
Sbjct: 351 QDEIDN-VLGNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 409
Query: 494 HAARKKKMEAML 505
A ++ L
Sbjct: 410 KPAVAGRLREFL 421
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ L+ +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 142 AKAALIKANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDFRKGFKFSTYATWW 201
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++MS KV
Sbjct: 202 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGRDPTPEEIAEEMDMSPDKV 261
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKL 441
R ++ + +E SL GE S++ D + + L E +
Sbjct: 262 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDFIPDDDALAPADAAAYELLKEQLED 313
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+
Sbjct: 314 VLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 373
Query: 501 MEAML 505
++ L
Sbjct: 374 LKDFL 378
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IAE +++S KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGREPTPEEIAEEMDISPDKV 259
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 260 R-------EIIKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 310
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 311 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 369
Query: 499 KKMEAML 505
K+++ L
Sbjct: 370 KRLKDFL 376
>gi|332638574|ref|ZP_08417437.1| RNA polymerase sigma factor [Weissella cibaria KACC 11862]
Length = 377
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 167/294 (56%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ E++A + RI + + A+++L +N+RL
Sbjct: 100 TGMKINDPVRMYLKEIGRVSLLTGDEEVALAERIEQGD--------DTAKQELAEANLRL 151
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 152 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 211
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ KVR+ +
Sbjct: 212 ARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIVTDKVRD-------ILK 264
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 265 IAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYQMLKEQLES-VLDTLTDREEN 322
Query: 453 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++ L
Sbjct: 323 VLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLRDFL 376
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/274 (33%), Positives = 163/274 (59%), Gaps = 21/274 (7%)
Query: 244 LAASLRISRPELQSIL-------MECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQ 296
+A++ ++ PE + I+ E +A++++V +N+RLV+SIA++Y N G DL+Q
Sbjct: 402 IASATGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQ 461
Query: 297 GGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRN 355
G IGL++ ++KF+ +G+K STY WWIRQ ++R++ + +RT+R+P H+ E + L+R
Sbjct: 462 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRC 521
Query: 356 AKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
++ L ++G P+ + +AE L+M +KVR KV + +E SL G+ S+
Sbjct: 522 SRQFLHDQGREPTPEEMAEKLSMPLEKVR-------KVMKIAKEPI-SLETPIGDEEDSH 573
Query: 416 IADNRVENNPWHGVD---DWALKDEVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDIS 471
+ D + N VD LK+ V + ++ +L RE ++R+ +G+ T E++
Sbjct: 574 LGDFIEDKNAIIPVDAAIQANLKETVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVG 632
Query: 472 KRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++ ++RER+RQ+ AL KLKH +R +KM + L
Sbjct: 633 QQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 666
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
LA+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 344 AKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 403
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G PS + IAE + +
Sbjct: 404 TWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMALPL 463
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKD 436
KVR KV + +E SL GE S++ D +E+ +P V L +
Sbjct: 464 DKVR-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKGVVSPLEAVIKANLSE 514
Query: 437 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
+ ++ ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H
Sbjct: 515 QTSR-VLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHP 573
Query: 496 ARKKKMEAML 505
+R KK+++ +
Sbjct: 574 SRAKKLKSFV 583
>gi|270291312|ref|ZP_06197534.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4]
gi|304385062|ref|ZP_07367408.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM
20284]
gi|418069346|ref|ZP_12706624.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Pediococcus acidilactici MA18/5M]
gi|427441992|ref|ZP_18925490.1| RNA polymerase primary sigma factor [Pediococcus lolii NGRI 0510Q]
gi|270280158|gb|EFA25994.1| RNA polymerase primary sigma factor [Pediococcus acidilactici 7_4]
gi|304329256|gb|EFL96476.1| RNA polymerase sigma factor rpoD [Pediococcus acidilactici DSM
20284]
gi|357536815|gb|EHJ20843.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Pediococcus acidilactici MA18/5M]
gi|425786860|dbj|GAC46278.1| RNA polymerase primary sigma factor [Pediococcus lolii NGRI 0510Q]
Length = 379
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 102/297 (34%), Positives = 168/297 (56%), Gaps = 25/297 (8%)
Query: 217 KIKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSN 273
K G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N
Sbjct: 99 KAPAGVKINDPVRMYLKEIGRVSLLTADEEVALALRIEKGD--------ERAKQELAEAN 150
Query: 274 VRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRAL 333
+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+
Sbjct: 151 LRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYQKGFKFSTYATWWIRQAITRAI 210
Query: 334 VENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGK 392
+ +RT+R+P H+ E + LIR + L++ G P + I ++M KVR +
Sbjct: 211 ADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPMPEEIGAEMDMPSDKVR-------E 263
Query: 393 VFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGER 449
+ + +E SL GE S++ D + D A LK+++ ++ TL +R
Sbjct: 264 ILKIAQEPV-SLETPIGEEDDSHLGDFIEDQEATSPADHAAYELLKEQLEG-VLDTLTDR 321
Query: 450 EREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
E ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 322 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 378
>gi|254556820|ref|YP_003063237.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1]
gi|254045747|gb|ACT62540.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1]
Length = 368
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/294 (34%), Positives = 170/294 (57%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
+G+ ++D ++ LKE R+ + E++A +LRI + + A+++L +N+RL
Sbjct: 91 SGIKINDPVRMYLKEIGRVDLLTADEEVALALRIEQGD--------ESAKQELAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++M +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D + + D A LK+++ ++ TL RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPADAAAYELLKEQLEG-VLDTLTNREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K+ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 376 AKTKMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 435
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 382
IRQ +SRA+ + +RT+R+P H+ E + I N +R L+E+G P +++IAE + + K
Sbjct: 436 IRQAISRAIADQARTIRIPIHMIETINRI-NKIMRKYLQEEGKEPDIEKIAEEVGLPVDK 494
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLI 442
V+N + + SL+ P NG G +++ P + LK +++ +
Sbjct: 495 VKNVIKITKEPISLEA---PIGNGEDG--KFGDFVEDKASLGPMDSILKEDLKAQIDD-V 548
Query: 443 IVTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
+ L ERE+ +IR+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH +K
Sbjct: 549 LDQLNEREKAVIRMRFGLLDDESDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGRK 608
Query: 501 M 501
+
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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYQKGYKFSTYATWW 196
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++++ +KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAEKMDLTPEKV 256
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEALAPSDAAAYELLKEQLE 307
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 499 KKMEAML 505
K+++ L
Sbjct: 367 KRLKDFL 373
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 126 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 185
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G PS + IA+ +N+++ KV
Sbjct: 186 IRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQELGRDPSPEEIAKEMNITEDKV 245
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN----PWHGVDDWALKDEVN 439
R ++ + +E SL GE S++ D +E++ P L+++++
Sbjct: 246 R-------EILKIAQEPV-SLETPIGEEEDSHLGDF-IEDHEARAPAEEASFTLLREQLD 296
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
+ ++ TL ERE+ ++RL +GLD T E++ ++ G++RER+RQ+ L KL+H +R
Sbjct: 297 E-VLKTLTEREQRVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRS 355
Query: 499 KKMEAML 505
KK++ L
Sbjct: 356 KKLKDYL 362
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L+ +N+RLV+SIA++Y N G DLVQ G IGL++ +EKF+ KGFK STY WW
Sbjct: 449 AKDRLIRANLRLVVSIAKKYTNRGLHFFDLVQEGNIGLIKAVEKFEYRKGFKFSTYATWW 508
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E++ ++R +++ ++ G P+ + +AE L ++ KV
Sbjct: 509 IRQAITRSISDQARTIRVPVHMIEQINKVVRESRMLMQSLGREPTDEEVAEKLGWTESKV 568
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHS----YIADNRVENNPWHGVDDWALKDEVN 439
+ V ++ RE SL GE S +I D VEN ++L E
Sbjct: 569 K-------AVKNVAREPI-SLETPVGEEEDSLLSDFIEDKEVENPATQTA--YSLLQEQL 618
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL RE+E++++ +GL D LT E++ L+RER+RQ+ AL +L+H R
Sbjct: 619 KDVLATLPAREQEVLKMRFGLEDGYSLTLEEVGLYFELTRERIRQIEAKALRRLRHPKRS 678
Query: 499 KKMEAML 505
+K++ +
Sbjct: 679 RKLKDFI 685
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 133 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYQKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IAE L+M ++V
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPLPEEIAEELDMPVERV 252
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 253 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAATLLKEQLGE 304
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 305 -VLDTLTDREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 363
Query: 500 KM 501
K+
Sbjct: 364 KL 365
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 207 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 266
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 267 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 318
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 319 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 377
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 378 RSKPLRDFM 386
>gi|404330390|ref|ZP_10970838.1| RNA polymerase sigma factor RpoD [Sporolactobacillus vineae DSM
21990 = SL153]
Length = 369
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 150/247 (60%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 132 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWW 191
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I + +++S +KV
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQELQDLGREPTPEEIGKKMDLSPEKV 251
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 252 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDAKAPSDAAAYELLKEQLE 302
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 303 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 361
Query: 499 KKMEAML 505
K+++ L
Sbjct: 362 KQLKDFL 368
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 106/298 (35%), Positives = 172/298 (57%), Gaps = 19/298 (6%)
Query: 213 RLSKKIKTGLSLDDH-KLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVM 271
+L I G+S+DD ++ LKE +G P L+A I E E +A++KLV
Sbjct: 92 KLDLSIPKGVSIDDPVRMYLKE-IGKIPL---LSAEEEIDLAEKMGYGDE--IAKKKLVE 145
Query: 272 SNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSR 331
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++R
Sbjct: 146 ANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYKKGFKFSTYATWWIRQAITR 205
Query: 332 ALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAI 390
A+ + +RT+R+P H+ E + LIR + L+E G P + +A+ ++M ++K+R
Sbjct: 206 AIADQARTIRIPVHMVETINKLIRVHRQLLQEYGRDPKPEELAKEMDMPEEKIR------ 259
Query: 391 GKVFSLDREAFPSLNGLPGETHHSYIAD--NRVENNPWHGVDDWALKDEVNKLIIVTLGE 448
++ + +E SL GE S++ D + ++L E + ++ TL E
Sbjct: 260 -EIMKIAQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPAEAAAYSLLKEQLEDVLCTLNE 317
Query: 449 REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
RE+++++L +GL D T E++ K ++RER+RQ+ AL KL+H +R KK++ L
Sbjct: 318 REQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKLKDYL 375
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 173/301 (57%), Gaps = 27/301 (8%)
Query: 214 LSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSLAREKL 269
L I G+S+DD ++ LKE +G P + E++ + R+ + + + A+ +L
Sbjct: 75 LDLSIPEGISIDDPVRMYLKE-IGKVPLLTAEEEIELAHRMEQGDAE--------AKRRL 125
Query: 270 VMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGV 329
+N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ +
Sbjct: 126 AEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAI 185
Query: 330 SRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATE 388
+RA+ + +RT+R+P H+ E + LIR ++ L+E G P + IA+ +NM +KVR
Sbjct: 186 TRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPHPEEIAKEMNMPVEKVR---- 241
Query: 389 AIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKLIIVT 445
++ + +E SL GE S++ D +++ P LK+++ ++ T
Sbjct: 242 ---EIMKISQEPV-SLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLVD-VLDT 296
Query: 446 LGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 504
L RE +++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R KK++
Sbjct: 297 LTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDY 356
Query: 505 L 505
L
Sbjct: 357 L 357
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 113/327 (34%), Positives = 166/327 (50%), Gaps = 59/327 (18%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT A+ V L+K+I+ GL H L ++RLG E LAA +R
Sbjct: 36 YLNGIGKTALLTAADEVELAKRIEAGLYAQ-HLLATRKRLG-ENRKRDLAAVVR------ 87
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 88 -----DGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGF 142
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHL--------------HERLGLIRNAKLRLE 361
K STY WWIRQ ++R + + SRT+RLP HL H+ LG + E
Sbjct: 143 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREATDEELAE 202
Query: 362 EKGVTPSVDRIAEYLNMSQKKVR------NATEAIGKVFSLDREAFPSLNGLPGETHHSY 415
E G+ V++I + L S+ V + EA F D EA + N + E H+
Sbjct: 203 ESGI--PVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISELLHTD 260
Query: 416 IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRI 474
I + ++ TL ERE+++IRL +GLD + T + I K
Sbjct: 261 I-----------------------RYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLF 297
Query: 475 GLSRERVRQVGLVALEKLKHAARKKKM 501
GLSRERVRQ+ + KL++ R ++
Sbjct: 298 GLSRERVRQIEREVMAKLRNGDRADRL 324
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKAVEKFDYKKGYKFSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + IAE +++S KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGREPTPEEIAEEMDISPDKV 259
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 260 R-------EIIKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 310
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 311 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 369
Query: 499 KKMEAML 505
K+++ L
Sbjct: 370 KRLKDFL 376
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++LV +N+RLV+SIA++Y G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 123 AKQQLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKAVEKFDYTKGYKFSTYATWW 182
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E + LIR ++ L+EKG P + I E +++S +KV
Sbjct: 183 IRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKGREPKPEEIGEEMDISAEKV 242
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D + + P LK++++
Sbjct: 243 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDEDSPAPASAASYILLKEQLDG 294
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE+ ++ L +G+ D T E++ K G++RER+RQ+ AL KL+H +R K
Sbjct: 295 -VLDTLTEREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSK 353
Query: 500 KMEAML 505
K++ L
Sbjct: 354 KLKDYL 359
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/246 (37%), Positives = 141/246 (57%), Gaps = 14/246 (5%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
AR KL +N+RLV+SIA+RY G + DL+Q G +GL+R ++KF + KGFK STY WW
Sbjct: 272 ARRKLTEANLRLVVSIAKRYTGRGLTLLDLIQEGNLGLMRAVDKFQTHKGFKFSTYATWW 331
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RAL +++RT+RLP HL E L + R A+ +E G P+ +A +NM ++
Sbjct: 332 IRQAITRALADHARTIRLPVHLVETLNRVSRVARQLTQELGREPTTSELAAAVNMPLDRL 391
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNK 440
R +A SL+ G+ S + D + +D A L+++V
Sbjct: 392 RELLQAAQDPVSLEAPV--------GQEEESTLGDFLEDERAVAPLDAAALSLLREQVQS 443
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
L + TL ERER ++ + +GL D + T E++ + G++RERVRQ+ AL KL+H R +
Sbjct: 444 L-LATLTERERRVLAMRFGLEDGQTYTLEEVGRAFGVTRERVRQIEAKALRKLRHPQRAR 502
Query: 500 KMEAML 505
+ L
Sbjct: 503 ALRDFL 508
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 97/288 (33%), Positives = 170/288 (59%), Gaps = 23/288 (7%)
Query: 221 GLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLV 277
G+ +DD ++ LK R+G + E++ + RI+ + + A++ L +N+RLV
Sbjct: 22 GVKIDDSVRMYLKGIGRVGLLSTEEEVDLAKRIAEGDEE--------AKKMLTEANLRLV 73
Query: 278 MSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENS 337
+SIA+RY G + DL+Q G +GL++ ++KFD +KGFK STY WWIRQ ++RA+ + +
Sbjct: 74 VSIARRYAGRGMSLLDLIQEGNMGLIKAVDKFDYTKGFKFSTYATWWIRQAITRAIADQA 133
Query: 338 RTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSL 396
RT+R+P H+ E + L+R ++ ++E G P V+ IA+ + +S +KVR ++ +
Sbjct: 134 RTIRIPVHMIETINKLVRVSRQLVQELGREPEVEEIAKEMELSVEKVR-------EIMKI 186
Query: 397 DREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREII 454
++ SL GE H + + D + + V+ A + +L ++ TL ERE ++
Sbjct: 187 SQDPI-SLETPIGEEHDTKLGDFIEDQDAQSPVESAAYESLKTQLGDVLDTLTEREENVL 245
Query: 455 RLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
RL +GLD T E++ + G++RER+RQ+ AL KL+H +R K++
Sbjct: 246 RLRFGLDDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKRL 293
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 139 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 198
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE + M ++V
Sbjct: 199 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMKMPVERV 258
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
R ++ + +E SL GE S++ D ++N D A +LI
Sbjct: 259 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLIE 310
Query: 444 V--TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
V TL ERE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +K
Sbjct: 311 VLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRK 370
Query: 501 MEAML 505
++ L
Sbjct: 371 LKDYL 375
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 101/257 (39%), Positives = 148/257 (57%), Gaps = 17/257 (6%)
Query: 246 ASLRISRPE---LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGL 302
A+L PE L+ I + AR+K+ +N+RLV+SIA+RY + G + DL+Q G +GL
Sbjct: 137 ATLPPDSPEAAKLRRIKEQGDEARQKMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGL 196
Query: 303 LRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE 362
LR IEKFD +KG+K STY WWI+Q +SRAL + SR +RLP HL E L I++A+ +L +
Sbjct: 197 LRAIEKFDHTKGYKFSTYATWWIKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQ 256
Query: 363 K-GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD--- 418
G P+ +A +L MS++K+R SL A P GE S +AD
Sbjct: 257 SLGREPTDTELANHLGMSEEKLRELRRTAQDPVSL---ATPV-----GEEADSTLADFIP 308
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLS 477
+ + L+ ++ + L ERER ++ L YGL D + T E++ K G++
Sbjct: 309 DPHALDADDAAASGMLRQQIAA-ALDQLSERERRVLELRYGLADGQPRTLEEVGKAFGVT 367
Query: 478 RERVRQVGLVALEKLKH 494
RERVRQ+ + AL KL+H
Sbjct: 368 RERVRQIEVKALRKLRH 384
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 185 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 244
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 245 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 296
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 297 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 355
Query: 497 RKKKM 501
R K +
Sbjct: 356 RSKPL 360
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 91/247 (36%), Positives = 146/247 (59%), Gaps = 14/247 (5%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
LA+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY W
Sbjct: 139 LAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATW 198
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I +++ +K
Sbjct: 199 WIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDIPTEK 258
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVN 439
VR+ + + +E SL GE S++ D +N D A LK ++
Sbjct: 259 VRD-------ILKIAQEPV-SLETPIGEEDDSHLGDFIEDNEAISPADSAAYEMLKVQLE 310
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL RE +++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 311 S-VLDTLTPREEQVLRLRFGLDDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRS 369
Query: 499 KKMEAML 505
K++ L
Sbjct: 370 KQLRDFL 376
>gi|383754709|ref|YP_005433612.1| putative RNA polymerase sigma factor RpoD [Selenomonas ruminantium
subsp. lactilytica TAM6421]
gi|381366761|dbj|BAL83589.1| putative RNA polymerase sigma factor RpoD [Selenomonas ruminantium
subsp. lactilytica TAM6421]
Length = 380
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 181/306 (59%), Gaps = 27/306 (8%)
Query: 209 AEVVRLSKKIKTGLSLDDH-KLRLKERLGCEPSM---EQLAASLRISRPELQSILMECSL 264
AE V + + G+S+DD ++ LKE +G P + E++A + R+ + +
Sbjct: 92 AEEVEIDLSVPEGISIDDPVRMYLKE-IGRVPLLTADEEVALAKRMQEGD--------EI 142
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KG+K STY WW
Sbjct: 143 AQKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 202
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L++ G PS + IA+ +++S ++V
Sbjct: 203 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQQLGREPSPEEIAKEMDISVERV 262
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++ P LK+++ +
Sbjct: 263 R-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDQDAPAPADAASFMLLKEQLEE 314
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL RE +++RL +GLD T E++ + G++RER+RQ+ AL KL+H +R +
Sbjct: 315 -VLDTLTPREEKVLRLRFGLDDGRARTLEEVGQSFGVTRERIRQIEAKALRKLRHPSRSR 373
Query: 500 KMEAML 505
K++ L
Sbjct: 374 KLKDFL 379
>gi|311031650|ref|ZP_07709740.1| RNA polymerase sigma factor RpoD [Bacillus sp. m3-13]
Length = 374
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 149/247 (60%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWW 196
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + IAE ++++ KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEIAEDMDLTPDKV 256
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQDATSPSDHAAYELLKEQLE 307
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 499 KKMEAML 505
K+++ L
Sbjct: 367 KRLKDFL 373
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/316 (32%), Positives = 183/316 (57%), Gaps = 27/316 (8%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL + +LR+ E G E+L+ +R
Sbjct: 166 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAE-RLRVAEEEG-----EKLSTQMR- 218
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+L+ I+ + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 219 --RDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 276
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTP 367
+KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P
Sbjct: 277 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREP 334
Query: 368 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWH 427
+ + +A+ +++S +KV + + SLD+ G+ S + D ++
Sbjct: 335 TPEELAKEMDISPEKVLEIQQYAREPISLDQ--------TIGDEGDSQLGDFIEDSEAVV 386
Query: 428 GVDDWA---LKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQ 483
VD + L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ
Sbjct: 387 AVDAVSFTLLQDQLQS-VLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQ 445
Query: 484 VGLVALEKLKHAARKK 499
+ + KL+H +R +
Sbjct: 446 IESKTMSKLRHPSRSQ 461
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/305 (34%), Positives = 174/305 (57%), Gaps = 22/305 (7%)
Query: 209 AEVVRLSKKIKTGLSLDDH-KLRLKERLGCE--PSMEQLAASLRISRPELQSILMECSLA 265
E + L+ I G+++DD ++ LKE + S E++ S +I + + S +A
Sbjct: 66 VEDLDLNSVIPEGITMDDPVRMYLKEIGSVQLLTSEEEILLSKKIKQNDTTS-----RIA 120
Query: 266 REKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWI 325
R+KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWI
Sbjct: 121 RKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDHTKGFKFSTYATWWI 180
Query: 326 RQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
RQ ++RA+ + +RT+R+P H+ E + R ++ L+E G P + IA+ +NM + KVR
Sbjct: 181 RQSITRAIADQARTIRIPVHMVETINKYTRVSRQLLQELGRDPLSEEIAKEMNMPENKVR 240
Query: 385 NATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNKL 441
+ + + SL+ GE S++ D +++ P LK+++
Sbjct: 241 DIRKIAQEPVSLETPI--------GEEEDSHLGDFIPDDDAPAPAEVAAFTLLKEQLMN- 291
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL RE+ +++L +GLD T E++ K ++RER+RQ+ AL KL+H +R KK
Sbjct: 292 VLDTLSAREKNVLKLRFGLDDGRARTLEEVGKEFKVTRERIRQIEAKALRKLRHPSRSKK 351
Query: 501 MEAML 505
++ L
Sbjct: 352 LKDYL 356
>gi|162458769|ref|NP_001105507.1| sigma-like factor6 [Zea mays]
gi|4336610|gb|AAD17856.1| sigma factor SIG6 [Zea mays]
Length = 541
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 167/310 (53%), Gaps = 7/310 (2%)
Query: 188 LIQNRL-KGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAA 246
LIQ L + +++ + E LT E ++ +I+ + L+ + L+ + G EP++E+ A
Sbjct: 223 LIQTSLFRLFLRDRETTEFLTAKEEKQMFSQIQNLMKLEGAQRNLQAQCGREPTVEEWAQ 282
Query: 247 SLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGI 306
++ +S ELQS + REK+ SN RLV+ +A++Y+ G D+ DLVQ G GL++
Sbjct: 283 AVGMSCRELQSCVRTGRRCREKMARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTF 342
Query: 307 EKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEKGVT 366
EKF+ SKG + TY YWWIRQ + +++ +NSR +RLP ++ L + A++ G
Sbjct: 343 EKFNPSKGCRFPTYAYWWIRQSIKKSIFKNSRLIRLPESVYALLRKVGKARMECIMDGEQ 402
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
P+ + +A ++ +K+ KV S+ + G T+ D +E P
Sbjct: 403 PTNEVVARRAGITIEKLAKLRAKTRKVRSMQDRVWSD----DGVTYQEITEDPNIE-GPE 457
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVG 485
VD ++ +V + L RE+EII +G+ D + T I GLS+ER+RQV
Sbjct: 458 VSVDRLMMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQ 517
Query: 486 LVALEKLKHA 495
AL+KL+++
Sbjct: 518 NKALDKLRNS 527
>gi|341820065|emb|CCC56296.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella
thailandensis fsh4-2]
Length = 378
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 100/290 (34%), Positives = 166/290 (57%), Gaps = 25/290 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ E++A + RI + A+++L +N+RL
Sbjct: 101 TGMKINDPVRMYLKEIGRVSLLTGKEEVALAERIESGD--------ETAKQELAEANLRL 152
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 153 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 212
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I ++++ KVR+ +
Sbjct: 213 ARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEIGAEMDVATDKVRD-------ILK 265
Query: 396 LDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA---LKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D +N D A LK+++ ++ TL +RE
Sbjct: 266 IAQEPV-SLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQLES-VLDTLTDREEN 323
Query: 453 IIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 501
++RL +GL D T E++ K G++RER+RQ+ AL KL+H +R K++
Sbjct: 324 VLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQL 373
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EK+D SKGFK STY WW
Sbjct: 135 AKKRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIKAVEKYDYSKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E + LIR ++ L+E G PS + +AE L+M ++V
Sbjct: 195 IRQAITRSIADQARTIRIPVHMVETINRLIRTSRQLLQELGREPSAEELAEKLDMPVERV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD--DWALKDEVNKL 441
R ++ + ++ SL GE S++ D +++ VD + L E
Sbjct: 255 R-------EIMKISQDPV-SLETPIGEEEDSHLGDFIQDDHVQVPVDAATYTLLHEQLME 306
Query: 442 IIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKK 500
++ TL +RE++++RL +GLD T E++ + ++RER+RQ+ AL KL+H +R +K
Sbjct: 307 VLDTLTDREQKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKALRKLRHPSRSRK 366
Query: 501 MEAML 505
++ L
Sbjct: 367 LKDYL 371
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 135 AKKELAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYHKGYKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA+ L+M +V
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAKELDMPVDRV 254
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++++
Sbjct: 255 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPAEAAAQTLLKEQLDE 306
Query: 441 LIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL ERE++++RL +G+ D T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 307 -VLDTLTEREQKVLRLRFGMNDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSR 365
Query: 500 KMEAML 505
K+ L
Sbjct: 366 KLRDYL 371
>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 (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 158/250 (63%), Gaps = 9/250 (3%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL+ I+ + A+E+++ +N+RLV+S+A++Y N G ++ DL+Q G +GL + ++KFD SK
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLEQAVKKFDPSK 223
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE-KGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ + +G T +V+ I
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATQSRLIRLPVHITEKLNKIKKAQRKISQMRGRTATVEEI 283
Query: 373 AEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDW 432
A+ L ++ ++VR + + SL+ + G +T + ++ ++ H VD+
Sbjct: 284 AQELALTPEEVRELLMKVPRSVSLEIKV-----GKEKDTELLDLLESEAVSSENHFVDE- 337
Query: 433 ALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEK 491
+L+ ++ +L + L RERE+I L YG LD + + I + + LS ERVRQ+ AL+K
Sbjct: 338 SLQRDIREL-LADLTTREREVIELRYGFLDGQSHSLAAIGRTLELSPERVRQIESKALQK 396
Query: 492 LKHAARKKKM 501
L+ R+ ++
Sbjct: 397 LRQPQRRNQI 406
>gi|456011651|gb|EMF45388.1| RNA polymerase sigma factor RpoD [Planococcus halocryophilus Or1]
Length = 327
Score = 156 bits (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY WW
Sbjct: 90 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWW 149
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KV
Sbjct: 150 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPSPEEIGEEMDLLPEKV 209
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E++ D A LK+++
Sbjct: 210 R-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDSDAQSPSDHAAYELLKEQLE 260
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 261 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 319
Query: 499 KKMEAML 505
K+++ L
Sbjct: 320 KRLKDFL 326
>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 (394), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 92/247 (37%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 137 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYQKGYKFSTYATWW 196
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++++ +KV
Sbjct: 197 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPAPEEIAEKMDLTPEKV 256
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEVN 439
R ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 257 R-------EIMKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEALAPSDAAAYELLKEQLE 307
Query: 440 KLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 308 D-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRS 366
Query: 499 KKMEAML 505
K+++ L
Sbjct: 367 KRLKDFL 373
>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 = 2e-35, Method: Compositional matrix adjust.
Identities = 88/233 (37%), Positives = 140/233 (60%), Gaps = 9/233 (3%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ ++ SN+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY WW
Sbjct: 369 AKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYATWW 428
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRN-AKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ +SRA+ + +RT+R+P H+ E + I + L+E G P V+ IAE + M +KV
Sbjct: 429 IRQAISRAIADQARTIRIPIHMIETINRINKIVRKHLQETGKEPDVETIAEEVGMPVEKV 488
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKLII 443
+N + + SL+ +G G+ +I D NP + +K ++ + I+
Sbjct: 489 KNVIKITKEPVSLEAPIGNEEDGKFGD----FIEDKNA-PNPLEVIMKEDMKSKIEE-IL 542
Query: 444 VTLGEREREIIRLYYGL--DKECLTWEDISKRIGLSRERVRQVGLVALEKLKH 494
L ERE+ ++R+ +GL D+ T E+I K + ++RERVRQ+ A++KLKH
Sbjct: 543 ENLNEREKAVVRMRFGLMPDESDRTLEEIGKELNVTRERVRQIESSAIKKLKH 595
>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 = 2e-35, Method: Compositional matrix adjust.
Identities = 87/247 (35%), Positives = 151/247 (61%), Gaps = 16/247 (6%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 468 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 527
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 528 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 587
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVEN----NPWHGVDDWALKDEVN 439
R KV + +E SL GE S++ D +E+ +P V + L ++
Sbjct: 588 R-------KVLKIAKEPI-SLETPIGEEEDSHLGDF-IEDKSLVSPADAVINMNLAEQTR 638
Query: 440 KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
K ++ TL RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R
Sbjct: 639 K-VLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRS 697
Query: 499 KKMEAML 505
K++ + +
Sbjct: 698 KRLRSFV 704
>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: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 208 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 267
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 268 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 327
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 328 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 379
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 380 LDD-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 438
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 439 RSKPLRDFM 447
>gi|357156833|ref|XP_003577591.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 552
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 170/321 (52%), Gaps = 23/321 (7%)
Query: 195 GYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPE 254
G + + +LLT E V LS I+ L L+ + L E GC+P+ Q AA+
Sbjct: 241 GSLWKLTGRKLLTAKEEVELSNGIQDLLKLEAIQAELAEYSGCQPTFPQWAAAAGTDEKT 300
Query: 255 LQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKG 314
L+ L ++ ++V SNVRLV+SIA+ ++ G ++ DL+Q G+ GL+RG EKFD+SKG
Sbjct: 301 LRKRLAHGIYSKNRMVTSNVRLVISIAREFEGPGLELYDLIQEGMQGLIRGAEKFDASKG 360
Query: 315 FKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEE--------KGVT 366
F+ STY +WWI+Q + +++ E ++ RLP H+ E A R++E
Sbjct: 361 FRFSTYSHWWIKQAMRKSVSEQTQIFRLPAHMVE-------ASYRVKECTRRLRRTLQRR 413
Query: 367 PSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPW 426
PS + IA + M K+V A SLD S G ++ AD E
Sbjct: 414 PSNEEIAVDIGMPVKRVEAAVNLPKYSVSLD-----SKIGTTDMSYQEVTADPSAETAE- 467
Query: 427 HGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVG 485
++ ++K +V++ + LG RER++++L +GLD + T ++I +G+SRER+RQ+
Sbjct: 468 EMLNRMSMKKDVHQ-ALDALGPRERQVVKLRFGLDDGRIRTLQEIGNIMGVSRERIRQIE 526
Query: 486 LVALEKLKHAARKKKMEAMLV 506
A KL+ + K + LV
Sbjct: 527 AGAFRKLRSKKKVKSLRDYLV 547
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 91/248 (36%), Positives = 150/248 (60%), Gaps = 16/248 (6%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 131 VAKARLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 190
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 191 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 250
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 251 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 301
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 302 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 360
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 361 SKRLKDFM 368
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 98/283 (34%), Positives = 165/283 (58%), Gaps = 29/283 (10%)
Query: 240 SMEQLAA----SLRISRPELQSI---LMECSLAREKLVMSNVRLVMSIAQRYDNMGADMA 292
++EQL A + +S ++QS+ + + A+EKLV +N RLV+SIA++Y G
Sbjct: 147 ALEQLEAVRNGEVDLSDEDVQSLEDTIRKGHYAKEKLVEANYRLVVSIAKKYTQRGLLFL 206
Query: 293 DLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG- 351
DL+Q G +GL+R ++KFD KGFK STY WWIRQ ++RA+ + +RT+R+P H+ E +
Sbjct: 207 DLIQEGNMGLMRAVDKFDYEKGFKFSTYATWWIRQAITRAVADQARTIRIPVHMVETINK 266
Query: 352 LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN----ATEAIGKVFSLDREAFPSLNGL 407
+IR + ++E G +++ IAE ++++ +KV+N A E I SL
Sbjct: 267 MIRIQRQLVQELGRDATIEEIAEKMDITPEKVQNIQRIAKEPI------------SLEAP 314
Query: 408 PGETHHSYIADNRVENNPWHGVDDWALKDEVNKL---IIVTLGEREREIIRLYYG-LDKE 463
GE S + D + N + D+ +++ V K ++ TL +RE +++RL YG LD +
Sbjct: 315 VGEEEDSSLGDFISDPNALNP-HDYMMQEMVKKTLDEVLETLTDREEKVLRLRYGLLDGK 373
Query: 464 CLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 506
T E++ + G++RER+RQ+ AL KL+ R+ K++ +
Sbjct: 374 THTLEEVGREFGVTRERIRQIEAKALRKLRSPQRQNKLKEFYI 416
>gi|257869538|ref|ZP_05649191.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2]
gi|357050733|ref|ZP_09111930.1| RNA polymerase sigma factor rpoD [Enterococcus saccharolyticus
30_1]
gi|257803702|gb|EEV32524.1| RNA polymerase sigma-43 factor [Enterococcus gallinarum EG2]
gi|355380885|gb|EHG28017.1| RNA polymerase sigma factor rpoD [Enterococcus saccharolyticus
30_1]
Length = 368
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 98/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++A +L+I + + A+++L +N+RL
Sbjct: 91 TGVKINDPVRMYLKEIGRVPLLTAEEEVALALKIEEGDQE--------AKQRLAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED-VLDTLTDREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +G+D T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>gi|403013|emb|CAA50594.1| major sigma factor [Lactococcus lactis]
Length = 340
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 150/249 (60%), Gaps = 14/249 (5%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 101 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 160
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 161 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 220
Query: 381 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDE 437
KVR +V + +E SL GE S++ D + V +P + L+++
Sbjct: 221 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQ 272
Query: 438 VNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAA 496
+++ ++ TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H
Sbjct: 273 LDE-VMDTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPR 331
Query: 497 RKKKMEAML 505
R K + +
Sbjct: 332 RSKPLRDFM 340
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 105/310 (33%), Positives = 166/310 (53%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT E V L+K+I+ G+ H L E L R R EL
Sbjct: 53 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTAEDLP------------RQRRVEL 99
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+++ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGF
Sbjct: 100 TALVRDGQRAKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYSKGF 159
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 160 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQQLGREATHEELAA 219
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
++++KV + + SLD + G+ +I D + V L
Sbjct: 220 EAGIAEEKVASLLDHARDPVSLDMPVGSEEDAPLGD----FIEDAEA-TDAESAVISGLL 274
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL +RE+ +IRL YGLD + T + I K GLSRERVRQ+ + KL+
Sbjct: 275 QDDLRR-VLATLDDREQHVIRLRYGLDDGQPRTLDQIGKHFGLSRERVRQIEREVMSKLR 333
Query: 494 HAARKKKMEA 503
R ++ A
Sbjct: 334 QGERADRLRA 343
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 98/294 (33%), Positives = 171/294 (58%), Gaps = 25/294 (8%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +L+I + + A+++L +N+RL
Sbjct: 91 TGVKINDPVRMYLKEIGRVPLLTAAEEVELALKIEEGDQE--------AKQRLAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFS 395
+RT+R+P H+ E + LIR + L++ G P+ + I +++S +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLSTEKVR-------EILK 255
Query: 396 LDREAFPSLNGLPGETHHSYIAD---NRVENNPWHGVDDWALKDEVNKLIIVTLGERERE 452
+ +E SL GE S++ D ++ +P LK+++ ++ TL +RE
Sbjct: 256 IAQEPV-SLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLED-VLDTLTDREEN 313
Query: 453 IIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
++RL +G+D T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 314 VLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 104/310 (33%), Positives = 166/310 (53%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT A+ V L+K+I+ G+ H L + L E R EL
Sbjct: 50 YLNGIGKTALLTAAQEVDLAKRIEAGV-FARHMLDTSDDLSRE------------RRAEL 96
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
I+ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 97 AMIVRDGEQAKTHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGF 156
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 157 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAA 216
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+++ KV + + SLD + G+ +I D+ + V L
Sbjct: 217 ESGIAESKVASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLL 271
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
D++ + ++ TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+
Sbjct: 272 SDDLRR-VLATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMSKLR 330
Query: 494 HAARKKKMEA 503
H R ++ A
Sbjct: 331 HGERADRLRA 340
>gi|184155321|ref|YP_001843661.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956]
gi|227514580|ref|ZP_03944629.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
fermentum ATCC 14931]
gi|260662165|ref|ZP_05863061.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN]
gi|183226665|dbj|BAG27181.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum IFO 3956]
gi|227086991|gb|EEI22303.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
fermentum ATCC 14931]
gi|260553548|gb|EEX26440.1| RNA polymerase sigma factor RpoD [Lactobacillus fermentum 28-3-CHN]
Length = 380
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 98/287 (34%), Positives = 164/287 (57%), Gaps = 22/287 (7%)
Query: 225 DDHKLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQ 282
D ++ LKE R+ + E++A +LRI + + A+++L +N+RLV+SIA+
Sbjct: 109 DPVRMYLKEIGRVNLLTADEEVALALRIEKGD--------ETAKQELAEANLRLVVSIAK 160
Query: 283 RYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRL 342
RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ + +RT+R+
Sbjct: 161 RYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRI 220
Query: 343 PNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAF 401
P H+ E + LIR + L++ G P + I ++M +KVR+ + + +E
Sbjct: 221 PVHMVETINKLIRIQRQLLQDLGREPLPEEIGAEMDMDTQKVRD-------ILKISQEPV 273
Query: 402 PSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL--IIVTLGEREREIIRLYYG 459
SL GE S++ D +++ D A + +L ++ TL +RE ++RL +G
Sbjct: 274 -SLETPIGEEDDSHLGDFIEDHDATSPADHAAYEMMKKQLENVLDTLTDREENVLRLRFG 332
Query: 460 LDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 505
LD T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 333 LDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 379
>gi|452991307|emb|CCQ97365.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 374
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 93/247 (37%), Positives = 147/247 (59%), Gaps = 12/247 (4%)
Query: 263 SLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVY 322
+A++KL +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY
Sbjct: 135 EIAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLMKAVEKFDYEKGFKFSTYAT 194
Query: 323 WWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQK 381
WWIRQ ++RA+ + +RT+R+P H+ E + L+R + ++E G P+ + IA+ +NM +
Sbjct: 195 WWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELGRDPTPEEIAKEMNMEVE 254
Query: 382 KVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWALKDEVNKL 441
KVR ++ + +E SL GE S++ D ++N D +L
Sbjct: 255 KVR-------EIMKIAQEPV-SLETPIGEEEDSHLGDFIEDDNALAPADAATYIMLREQL 306
Query: 442 IIV--TLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 498
I V TL RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R
Sbjct: 307 IDVLDTLTPREQKVLRLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRS 366
Query: 499 KKMEAML 505
KK++ L
Sbjct: 367 KKLKDFL 373
>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: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A+ ++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 425 EARIAKTEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 484
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R ++ L E G P+ + +AE L+M
Sbjct: 485 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQILHEIGREPTPEELAERLSMP 544
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVD---DWALKD 436
+KVR KV + +E SL G+ S++ D + N VD LK+
Sbjct: 545 LEKVR-------KVMKIAKEPI-SLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKE 596
Query: 437 EVNKLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 495
V + ++ +L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH
Sbjct: 597 TVTR-VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 655
Query: 496 ARKKKMEAML 505
+R +KM + L
Sbjct: 656 SRSRKMRSFL 665
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 90/268 (33%), Positives = 158/268 (58%), Gaps = 12/268 (4%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
S+E+ +R+ LQ + + A+ ++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 292 SLEEYKKDVRM----LQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 347
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 348 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 407
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIAD 418
+ E G P+ + +A L +S +++R + SL E G GE+ +
Sbjct: 408 LMMETGREPTPEELANELGLSAERIREIYKIAQHPISLQAEV-----GDGGESQFGDFLE 462
Query: 419 NRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLS 477
+ ++P LKD++N+ +++TL +RER+++ +GL D + T E++ ++
Sbjct: 463 DTGADSPAEATGYSILKDKMNE-VLLTLTDRERKVLIQRFGLNDGKPKTLEEVGVEFNVT 521
Query: 478 RERVRQVGLVALEKLKHAARKKKMEAML 505
RER+RQ+ AL K++H R K+++A L
Sbjct: 522 RERIRQIEAKALRKMRHPTRSKQLKAFL 549
>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: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WW
Sbjct: 138 AKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWW 197
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IAE ++M +V
Sbjct: 198 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAEEMDMPVDRV 257
Query: 384 RNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENN---PWHGVDDWALKDEVNK 440
R ++ + +E SL GE S++ D ++N P LK+++ +
Sbjct: 258 R-------EILKISQEPV-SLETPIGEEEDSHLGDFIQDDNVPVPADAAAFTLLKEQLVE 309
Query: 441 LIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKK 499
++ TL +RE++++RL +GLD T E++ K ++RER+RQ+ AL KL+H +R +
Sbjct: 310 -VLSTLTDREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSR 368
Query: 500 KMEAML 505
K++ L
Sbjct: 369 KLKDYL 374
>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 = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 104/310 (33%), Positives = 166/310 (53%), Gaps = 21/310 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LLT E V L+K+I+ G+ H L L E R EL
Sbjct: 50 YLNGIGKTALLTAEEEVDLAKRIEAGV-FAQHVLDTSGDLSAE------------RRGEL 96
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+I+ + A+ L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD +KGF
Sbjct: 97 AAIVRDGERAKNHLLQANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYAKGF 156
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + RT+RLP HL E++ + K L ++ G + + +A
Sbjct: 157 KFSTYATWWIRQAITRGMADQGRTIRLPVHLVEQVNKLARIKRDLHQRLGREATNEELAA 216
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWAL 434
+++ KV + + SLD + G+ +I D+ + V L
Sbjct: 217 ESGIAETKVASLLDHARDPVSLDMPVGTEEDAPLGD----FIEDSEA-TDAESTVISTLL 271
Query: 435 KDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLK 493
+D++ + ++ TL +RE+++IRL YGLD + T + I K LSRERVRQ+ + KL+
Sbjct: 272 QDDLRR-VLATLDDREQQVIRLRYGLDDGQPRTLDQIGKHFSLSRERVRQIEREVMAKLR 330
Query: 494 HAARKKKMEA 503
H R ++ A
Sbjct: 331 HGERADRLRA 340
>gi|124021877|ref|YP_001016184.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
gi|123962163|gb|ABM76919.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
Length = 350
Score = 156 bits (394), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 96/305 (31%), Positives = 176/305 (57%), Gaps = 12/305 (3%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
++ Y++ + LL+H + + L ++++ +SL+ + L+ + G S ++LA + +S
Sbjct: 43 VRSYLRDIGRVPLLSHEQEITLGRQVQELMSLEQLESELEGKTGAPASRKELAKAAGLSE 102
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L+ L A+E++V +N+RLV+S+A++Y ++ DL+Q G IGL+RG+EKFD +
Sbjct: 103 LQLKKKLQIGRRAKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPT 162
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDR 371
+G+K STY YWWIRQG++RA+ E SRT+RLP H+ E L ++ + L +E G TP+V
Sbjct: 163 RGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSE 222
Query: 372 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDD 431
+AE++ + +++V++ + SL+ + G+ E P V+
Sbjct: 223 LAEFVELPEEEVKDLMCRARQPMSLEMKVG------DGDETELLELLAGEEELPSEKVEV 276
Query: 432 WALKDEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQV---GLV 487
+K ++ L + L E + ++R+ YG+D E + I + + +SR+RVR + GL
Sbjct: 277 DCMKGDLRTL-LEKLPELQGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNLERHGLN 335
Query: 488 ALEKL 492
L +L
Sbjct: 336 GLRQL 340
>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: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRVPVHMVETINKLIRVQRQLLQDLGRDPAHEEIGEEMDLPPEK 249
Query: 383 VRNATEAIGKVFSLDREAFPSLNGLPGETHHSYIADNRVENNPWHGVDDWA----LKDEV 438
VR ++ + +E SL GE S++ D +E+ D A LK+++
Sbjct: 250 VR-------EILKIAQEPV-SLETPIGEEDDSHLGDF-IEDQEAQSPSDHAAYELLKEQL 300
Query: 439 NKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAAR 497
++ TL +RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R
Sbjct: 301 ED-VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSR 359
Query: 498 KKKMEAML 505
K+++ +
Sbjct: 360 SKRLKDFM 367
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 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,334,512,046
Number of Sequences: 23463169
Number of extensions: 296708944
Number of successful extensions: 987575
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 10490
Number of HSP's successfully gapped in prelim test: 1831
Number of HSP's that attempted gapping in prelim test: 956844
Number of HSP's gapped (non-prelim): 16431
length of query: 508
length of database: 8,064,228,071
effective HSP length: 147
effective length of query: 361
effective length of database: 8,910,109,524
effective search space: 3216549538164
effective search space used: 3216549538164
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)