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= 010092
(518 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|224110206|ref|XP_002333134.1| predicted protein [Populus trichocarpa]
gi|222834948|gb|EEE73397.1| predicted protein [Populus trichocarpa]
Length = 512
Score = 738 bits (1904), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 377/521 (72%), Positives = 441/521 (84%), Gaps = 12/521 (2%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVV++SSS +R+P+GLST ++ ST+KRPLIVAFKADKSNN +L +P EQIPLP+ET
Sbjct: 1 MGVVSVSSSASRTPLGLSTKFSTYGSTAKRPLIVAFKADKSNNTSLVAPHEQIPLPVETT 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K +KR S+K R+K V + E SPCTL VDYNEAAAKLENIYKLSP TS+V+ A
Sbjct: 61 K-GKKRLGKSKKSSNRLKAVRT-EVSPCTLLVDYNEAAAKLENIYKLSPGTDTSDVEDAS 118
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELR-KNEDEKVVTKT 177
GV++RGRQR+++I E K+++D +GK +VRN+ K+ KRLSL+KRI LR KNE++ V +
Sbjct: 119 GVIRRGRQRKRKISEGGKETEDRTGKIIVRNRAKKAKRLSLEKRISLRIKNEEKLVSSAG 178
Query: 178 RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
++ D K+E+EKI+ LVREYS STDLVSLDWKKMKIPPVL+S+EH WLFKLMQPMK +QV
Sbjct: 179 KRKDRKNENEKIDDLVREYSASTDLVSLDWKKMKIPPVLTSSEHVWLFKLMQPMKALLQV 238
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQ++LG EPTDVELA+A NM QV+K + VGRAARNKLIKHNLRLVLFVIKKYFQD
Sbjct: 239 KEHLQENLGGEPTDVELAKAINMDVLQVRKQIAVGRAARNKLIKHNLRLVLFVIKKYFQD 298
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FANG +FQD CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT+SSFTRV FG
Sbjct: 299 FANGTKFQDFCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTLSSFTRVSFG 358
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES +R EIQ+AKLEL F+LKR P ++EII+ V ISPERY EV +ASKP+LSLHSR
Sbjct: 359 LES-----IRSEIQKAKLELWFQLKRQPMEDEIIEKVRISPERYHEVTRASKPVLSLHSR 413
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEEFI GI DVDG +++RQ ALLRLALDDVLDSLKPKESLV+RQR+GLDGKGDR
Sbjct: 414 HKTTQEEFIGGIADVDG--GDDRRQSALLRLALDDVLDSLKPKESLVVRQRYGLDGKGDR 471
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHEVK LMKLKHPTRVDYLR+++V
Sbjct: 472 TLGEIAGNLNISREMVRKHEVKALMKLKHPTRVDYLRRYVV 512
>gi|255545052|ref|XP_002513587.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
gi|223547495|gb|EEF48990.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
Length = 501
Score = 723 bits (1865), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 365/521 (70%), Positives = 434/521 (83%), Gaps = 23/521 (4%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT SSS AR+P+GLS ++RST KR L+VAFK DK+N+ L P+E+ PLPIET
Sbjct: 1 MGVVTASSSAARTPLGLSLKFSTYRSTVKRSLVVAFKEDKANDIILVPPRERTPLPIETS 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K ++R + +R E S TL+VDYNEAAAKLENIYKLSPA TS+V +
Sbjct: 61 KGKKRRGKTNR------------EVSSGTLEVDYNEAAAKLENIYKLSPATDTSDVDI-N 107
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTR 178
G++++GRQR+++ GE ++K+++ + + +VRN+ K+ KRLSLDKRI L+KNE+E+VV R
Sbjct: 108 GLIRKGRQRKRKTGEGDEKAENRTSRTIVRNRAKKTKRLSLDKRIALKKNEEEEVVGPIR 167
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
K DSKD++EKIE+LVR YS ST+LVSLDW+KMKIPPVL STEH WLFKLMQPMK + V
Sbjct: 168 KKKDSKDDNEKIEELVRTYSASTNLVSLDWRKMKIPPVLPSTEHAWLFKLMQPMKTLLPV 227
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K LQK+LGR+PTD ELAEATNM+ +V+K LEVGRAARNKLIKHNLRLV+FV+ KYFQD
Sbjct: 228 KADLQKNLGRDPTDGELAEATNMNVEKVRKQLEVGRAARNKLIKHNLRLVMFVMNKYFQD 287
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FANGPRFQDLCQAGVKGLITAIDRFEP+RRF+LSTY LFWIRHAIIRSMT+SSFT+V FG
Sbjct: 288 FANGPRFQDLCQAGVKGLITAIDRFEPQRRFQLSTYSLFWIRHAIIRSMTLSSFTKVSFG 347
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES VR EIQ+AKLELL EL+R PT+EEII+ V IS ERY EV++A+KP LSLH+R
Sbjct: 348 LES-----VRTEIQKAKLELLIELQRRPTEEEIIERVGISAERYHEVIRAAKPALSLHAR 402
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H VTQEEFINGITD+DG +N+RQPALLRLALDDVLDSLKPKESLVIRQR+GLDGKGDR
Sbjct: 403 HAVTQEEFINGITDIDG--GDNRRQPALLRLALDDVLDSLKPKESLVIRQRYGLDGKGDR 460
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRK+EVK LMKLKHP RVDYLR+++V
Sbjct: 461 TLGEIAGNLNISREMVRKYEVKALMKLKHPARVDYLRRYVV 501
>gi|224116898|ref|XP_002331841.1| predicted protein [Populus trichocarpa]
gi|222875079|gb|EEF12210.1| predicted protein [Populus trichocarpa]
Length = 512
Score = 721 bits (1860), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 366/521 (70%), Positives = 430/521 (82%), Gaps = 12/521 (2%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MG+V++SSS + +P+G ST + RST+KRPLIVAFKADKSN AL +P EQIPLPIET
Sbjct: 1 MGIVSVSSSASWTPLGFSTKFSTCRSTAKRPLIVAFKADKSNETALVAPHEQIPLPIETT 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K ++R ++ + +R+K V + E SPCTL VDYNEAAAKLENIYKLSP TS+V+ +
Sbjct: 61 KEKKRRGKSKKSS-DRLKAVRT-EVSPCTLGVDYNEAAAKLENIYKLSPGTDTSDVEDVN 118
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKT- 177
GV++R RQR+++ E EK+ D + K +VRNQ K+ KRLSL KRI LR DEK+VT
Sbjct: 119 GVIRRCRQRKRKTSECEKEDDGRTSKIIVRNQAKKAKRLSLQKRIALRIKSDEKLVTSVG 178
Query: 178 RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
++ K+E+EKI++LVREYS STDL SLDWKKMKIPPVL+S EH WLFKLMQPMK +QV
Sbjct: 179 KRKGRKNENEKIDELVREYSSSTDLASLDWKKMKIPPVLTSAEHAWLFKLMQPMKASLQV 238
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQ++ GREPT+ ELAEAT+M QV+K +EVGRAARNKLIKHNLRLVLFVI KYFQD
Sbjct: 239 KEHLQENSGREPTEGELAEATDMDVLQVRKQIEVGRAARNKLIKHNLRLVLFVINKYFQD 298
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
+ANGPR+QDLCQAGVKGL+TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT+SSFTRV FG
Sbjct: 299 YANGPRYQDLCQAGVKGLMTAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTLSSFTRVSFG 358
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES +R EIQ+AKLEL F+L R PT EEII+ V IS ERY EVM+ASKP+LSLHSR
Sbjct: 359 LES-----IRSEIQKAKLELWFQLLRKPTGEEIIEKVGISIERYHEVMRASKPVLSLHSR 413
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEE I+G+ DV+G +++RQ ALLRLALDDVLDSLKPKESLV+RQRFGLDGKGDR
Sbjct: 414 HKTTQEELISGVADVNG--GDDRRQSALLRLALDDVLDSLKPKESLVVRQRFGLDGKGDR 471
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHE K LMKLKHPTRVDYL +++V
Sbjct: 472 TLGEIAGNLNISREMVRKHEAKALMKLKHPTRVDYLCRYVV 512
>gi|356546249|ref|XP_003541542.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 512
Score = 711 bits (1835), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 355/521 (68%), Positives = 427/521 (81%), Gaps = 12/521 (2%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGV+T+S+S AR+P+ L+T ISH+ KRP+I+AFK +KSN L SPQE+IPLP+ET
Sbjct: 1 MGVITVSTSAARTPLRLNTRLISHQQVHKRPIILAFKGNKSNKTTLVSPQEKIPLPLETA 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K+HQKR + + L+RV+ V + E SPCTLDVDYNEAAAKLENIYKLSP T V+ D
Sbjct: 61 KKHQKRVGKTSESLKRVRAVSTVETSPCTLDVDYNEAAAKLENIYKLSPVSDTCNVEDID 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKT- 177
++R +RRK++ E + DD + VVRNQ K+ KRLSLDKRI L+ N E+V+ +T
Sbjct: 121 SKIERVLRRRKKVSE---ERDDGNCDNVVRNQNKKAKRLSLDKRIALKNNAKEEVIDQTQ 177
Query: 178 RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
+K + K+ + I+ L+R+YS STDLVS+DWKKMKIPPVL S+EH WLFKLMQPMK +Q
Sbjct: 178 KKRNVKNRVQNIDVLIRDYSASTDLVSMDWKKMKIPPVLPSSEHAWLFKLMQPMKALLQA 237
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE L K++ +E T ELA+ATNMS QV+K +EVGRAARNKLIKHNLRLVLFVI KYFQD
Sbjct: 238 KEDL-KEVDKEITGGELADATNMSIIQVRKAIEVGRAARNKLIKHNLRLVLFVINKYFQD 296
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FA+GPRFQDLCQAGVKGLITAIDRFEPKRR +LSTY LFWIRH+I+RS+T+SSFTRVPFG
Sbjct: 297 FASGPRFQDLCQAGVKGLITAIDRFEPKRRLQLSTYSLFWIRHSIVRSITLSSFTRVPFG 356
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LE +VR +IQR KL+L FEL+R PT+EE+++ + IS ERY EVMKASKPILSLHSR
Sbjct: 357 LE-----RVRVDIQRTKLKLTFELQRSPTEEELVERIGISLERYHEVMKASKPILSLHSR 411
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEE+INGITDVDGV +N+RQ A+LRLALDDVLDSLKPKESLVIRQR+GLDGKGDR
Sbjct: 412 HITTQEEYINGITDVDGVNGDNRRQLAVLRLALDDVLDSLKPKESLVIRQRYGLDGKGDR 471
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISRE+VRKHEVK LMKLKHP R+DYLR+++V
Sbjct: 472 TLGEIAGNLNISREIVRKHEVKALMKLKHPARLDYLRRYVV 512
>gi|388556562|ref|NP_001254001.1| RNA polymerase sigma factor rpoD-like [Glycine max]
gi|382365028|dbj|BAM05477.1| sigma-like factor 5A [Glycine max]
Length = 512
Score = 707 bits (1824), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 357/521 (68%), Positives = 422/521 (80%), Gaps = 12/521 (2%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT+S+ AR+P+ L+T SH+ KRPLIVAFK +K N AL SPQEQIPLPIET
Sbjct: 1 MGVVTVSTLAARTPLRLNTRLTSHQQVHKRPLIVAFKGNKLNKAALVSPQEQIPLPIETA 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K+ QKR + + L+RV+ V E SPCTLD+DYNEAAAKLENIYKLSP T ++ D
Sbjct: 61 KKDQKRVGKTSESLKRVRAVSIVETSPCTLDMDYNEAAAKLENIYKLSPVSDTCNMEDID 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTR 178
V+R RR+++G + DD + VVRNQ K+ KRLSLDKRI L+ N E+V+ +T+
Sbjct: 121 SKVERVLWRRRKVGN---EHDDENCDIVVRNQNKKAKRLSLDKRITLKNNAKEEVIDQTQ 177
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
K + K+ + I+ L+R+YS STDLVS+DWKKMKIP VL S+EH WLFKLMQPMK +Q
Sbjct: 178 KIRNVKNRVQNIDVLIRDYSASTDLVSMDWKKMKIPAVLPSSEHAWLFKLMQPMKALLQA 237
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQ +G+E TD ELA+ATNMS QV+K +EVGRAARNKLIKHNLRLVLFVI KYFQD
Sbjct: 238 KEDLQ-SVGKEITDGELADATNMSIIQVRKAIEVGRAARNKLIKHNLRLVLFVISKYFQD 296
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FA+G RFQDLCQAGVKGLITAIDRFEPKRR +LSTY LFWIRH+I+RS+T+SSFTRVPFG
Sbjct: 297 FASGRRFQDLCQAGVKGLITAIDRFEPKRRLQLSTYSLFWIRHSIVRSITLSSFTRVPFG 356
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LE +VR +IQR KL+L FEL+R PT+EE+++ + ISPERY EVMKASKPILSLHSR
Sbjct: 357 LE-----RVRVDIQRTKLKLTFELQRSPTEEELVERIGISPERYYEVMKASKPILSLHSR 411
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEE+INGITDVDGV +N+RQ A+LRLALDDVLDSLKPKESLVIRQR+GLDGKGDR
Sbjct: 412 HITTQEEYINGITDVDGVNGDNRRQLAVLRLALDDVLDSLKPKESLVIRQRYGLDGKGDR 471
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHEVK LMKLKHP R+DYLR+++V
Sbjct: 472 TLGEIAGNLNISREMVRKHEVKALMKLKHPARLDYLRRYVV 512
>gi|449518953|ref|XP_004166500.1| PREDICTED: RNA polymerase sigma factor sigE,
chloroplastic/mitochondrial-like [Cucumis sativus]
Length = 515
Score = 701 bits (1809), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 356/527 (67%), Positives = 420/527 (79%), Gaps = 21/527 (3%)
Query: 1 MGVVTISSSPARSP--IGLSTISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT+SS+ AR+P +G+ +H ST KRP IVAFKADK N L SP EQ+ LP+E+
Sbjct: 1 MGVVTVSSAAARTPFRLGVKFSNHSSTLKRPSIVAFKADKHTNTTLVSPHEQVTLPVESN 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
R +KR N+ K L+RVK V DEA+PC+LD+DYNEAAAKLENI+KLSP S+ + D
Sbjct: 61 NRRKKRSGNTSKPLKRVKAVLIDEATPCSLDLDYNEAAAKLENIFKLSPMTEDSDKECKD 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKN-------EDE 171
G KRG++R KKS + G +VRNQ KR KRL LDKRI L+ E +
Sbjct: 121 GRSKRGQKR-------SKKSANRPGDGIVRNQTKRIKRLDLDKRIALKNKRKAKRNKEGK 173
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
V + ++ ++K+E ++I++LVR+YS STDLVSLDWKKMKIPPVL S+EHT LFKL+QPM
Sbjct: 174 AVPSLRKQKETKNEDDEIDRLVRDYSASTDLVSLDWKKMKIPPVLPSSEHTRLFKLVQPM 233
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
K V+V+E+LQK LGREPT+ ELA ATNM+ QV++ LEVGRAARNKLIKHNLRLVLFVI
Sbjct: 234 KALVEVQEELQKGLGREPTEGELANATNMNVIQVRRQLEVGRAARNKLIKHNLRLVLFVI 293
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KYF+DFA+GP+FQDLCQAGVKGLITAIDRFEPKR+FRLSTY LFWIRHAIIRSMT+SSF
Sbjct: 294 NKYFEDFASGPKFQDLCQAGVKGLITAIDRFEPKRKFRLSTYALFWIRHAIIRSMTLSSF 353
Query: 352 TRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPI 411
TRV FGL+S VR EIQRAKLELL EL R+PT+ EI V IS ERY EVM+A+KP+
Sbjct: 354 TRVSFGLDS-----VRVEIQRAKLELLCELHRLPTEGEITAKVGISQERYLEVMRATKPV 408
Query: 412 LSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL 471
SLHSRH T EE INGITDV+G +N+RQPALLRLALDDVLDSLKPKESLVIRQR+GL
Sbjct: 409 YSLHSRHSTTSEELINGITDVEGTGGDNRRQPALLRLALDDVLDSLKPKESLVIRQRYGL 468
Query: 472 DGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
DGKG+RTLGEIAGNLNISREMVRKHEVK LMKLKHP RVDYLR++++
Sbjct: 469 DGKGNRTLGEIAGNLNISREMVRKHEVKALMKLKHPARVDYLRRYLI 515
>gi|449463472|ref|XP_004149458.1| PREDICTED: RNA polymerase sigma factor sigE,
chloroplastic/mitochondrial-like [Cucumis sativus]
Length = 514
Score = 701 bits (1808), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 359/526 (68%), Positives = 420/526 (79%), Gaps = 20/526 (3%)
Query: 1 MGVVTISSSPARSP--IGLSTISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT+SS+ AR+P +G+ +H ST KRP IVAFKADK N L SP EQ+ LP+E+
Sbjct: 1 MGVVTVSSAAARTPFRLGVKFSNHSSTLKRPSIVAFKADKHTNTTLVSPHEQVTLPVESN 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
R +KR N+ K L+RVK V DEA+PC+LD+DYNEAAAKLENI+KLSP S+ + D
Sbjct: 61 NRRKKRSGNTSKPLKRVKAVLIDEATPCSLDLDYNEAAAKLENIFKLSPMTEDSDKECKD 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTR 178
G KRG++R KKS + G +VRNQ KR KRL LDKRI L+ ++ K V R
Sbjct: 121 GRSKRGQKR-------SKKSANRPGDGIVRNQTKRIKRLDLDKRIALKNKKEGKAVALLR 173
Query: 179 KT-DSKDE-----HEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMK 232
K D+K+E ++I++LVR+YS STDLVSLDWKKMKIPPVL S+EHT LFKL+QPMK
Sbjct: 174 KQKDTKNEADEIDDDEIDRLVRDYSASTDLVSLDWKKMKIPPVLPSSEHTRLFKLVQPMK 233
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIK 292
V+V+E+LQK LGREPT+ ELA ATNM+ QV++ LEVGRAARNKLIKHNLRLVLFVI
Sbjct: 234 ALVEVQEELQKGLGREPTEGELANATNMNVIQVRRQLEVGRAARNKLIKHNLRLVLFVIN 293
Query: 293 KYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT 352
KYF+DFA+GP+FQDLCQAGVKGLITAIDRFEPKR+FRLSTY LFWIRHAIIRSMT+SSFT
Sbjct: 294 KYFEDFASGPKFQDLCQAGVKGLITAIDRFEPKRKFRLSTYALFWIRHAIIRSMTLSSFT 353
Query: 353 RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPIL 412
RV FGL+S VR EIQRAKLELL EL R+PT+ EI V IS ERY EVM+A+KP+
Sbjct: 354 RVSFGLDS-----VRVEIQRAKLELLCELHRLPTEGEITAKVGISQERYLEVMRATKPVY 408
Query: 413 SLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
SLHSRH T EE INGITDV+G +N+RQPALLRLALDDVLDSLKPKESLVIRQR+GLD
Sbjct: 409 SLHSRHSTTSEELINGITDVEGTGGDNRRQPALLRLALDDVLDSLKPKESLVIRQRYGLD 468
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GKG+RTLGEIAGNLNISREMVRKHEVK LMKLKHP RVDYLR++++
Sbjct: 469 GKGNRTLGEIAGNLNISREMVRKHEVKALMKLKHPARVDYLRRYLI 514
>gi|356516017|ref|XP_003526693.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 507
Score = 694 bits (1790), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 353/521 (67%), Positives = 420/521 (80%), Gaps = 17/521 (3%)
Query: 1 MGVVTISSSPARSPIGLSTISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETPKR 60
MGVVT+SSS AR+P+GL+T + KRPLIVAFK DK N+ AL + QE+IP+P+ET K+
Sbjct: 1 MGVVTVSSSAARTPLGLNTKFCNNRLKRPLIVAFKGDKHNDSALVATQEKIPVPVETAKK 60
Query: 61 HQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYADGV 120
QK+R +L + E+SP ++DVDYNEAAA LEN+YKLSPA +E DG
Sbjct: 61 TQKKRIGKTNKLPK------RESSPSSMDVDYNEAAAMLENLYKLSPASDNAEC--IDGK 112
Query: 121 VKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVK--RPKRLSLDKRIELRKNEDEKVVTKTR 178
+KR +R K++ + E + ++ G VVRNQ K +PKRL+LD+RI L+ N+ V TR
Sbjct: 113 IKRVSRRGKKVVD-ESEEKELKGDWVVRNQNKNKKPKRLNLDQRISLKNNKSGDEVIPTR 171
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
K + ++ EKIE+L+REYS STD VS+DWK+M+IPPVLSS+EH WLFKLMQPMK +QV
Sbjct: 172 KKRNVGNKIEKIEELIREYSVSTDFVSMDWKRMRIPPVLSSSEHAWLFKLMQPMKALLQV 231
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQ++L REP D ELA+ATNMS QV+K ++VG+AARNKLIKHNLRLVLFVI KYF D
Sbjct: 232 KEDLQQELTREPADGELADATNMSITQVRKAIDVGQAARNKLIKHNLRLVLFVINKYFTD 291
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FA+GPRFQDLCQAGVKGLITAIDRFEP RRFRLSTY LFWIRHAIIRSMT+S+FTRVPFG
Sbjct: 292 FASGPRFQDLCQAGVKGLITAIDRFEPNRRFRLSTYSLFWIRHAIIRSMTLSNFTRVPFG 351
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES VR EIQ+AK EL FEL+R PT+EEII+ V+ISPERY +V+KASK ILSL+SR
Sbjct: 352 LES-----VRAEIQKAKTELTFELQRSPTEEEIIERVHISPERYHDVIKASKSILSLNSR 406
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEEFINGI D DGV +N++QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR
Sbjct: 407 HTTTQEEFINGIVDDDGVNGDNRKQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 466
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHEVK LMKLKH R+DYLR+++V
Sbjct: 467 TLGEIAGNLNISREMVRKHEVKALMKLKHSARLDYLRRYVV 507
>gi|382365034|dbj|BAM05478.1| sigma-like factor 5B [Glycine max]
Length = 507
Score = 691 bits (1784), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 352/521 (67%), Positives = 419/521 (80%), Gaps = 17/521 (3%)
Query: 1 MGVVTISSSPARSPIGLSTISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETPKR 60
MGVVT+SSS AR+P+GL+T + KRPLIVAFK DK N+ AL + QE+IP+P+ET K+
Sbjct: 1 MGVVTVSSSAARTPLGLNTKFCNNRLKRPLIVAFKGDKHNDSALVATQEKIPVPVETAKK 60
Query: 61 HQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYADGV 120
QK+R +L + E+SP ++DVDYNEAAA LEN+YKLSPA +E DG
Sbjct: 61 TQKKRIGKTNKLPK------RESSPSSMDVDYNEAAAMLENLYKLSPASDNAEC--IDGK 112
Query: 121 VKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVK--RPKRLSLDKRIELRKNEDEKVVTKTR 178
+KR +R K++ + E + ++ G VVRNQ K +PKRL+LD+RI L+ N+ V TR
Sbjct: 113 IKRVSRRGKKVVD-ESEEKELKGDWVVRNQNKNKKPKRLNLDQRISLKNNKSGDEVIPTR 171
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
K + ++ EKIE+L+REYS STD VS+DWK+M+IPPVLSS+EH WLFKLMQPMK +QV
Sbjct: 172 KKRNVGNKIEKIEELIREYSVSTDFVSMDWKRMRIPPVLSSSEHAWLFKLMQPMKALLQV 231
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQ++L REP D ELA+ATNMS QV+K ++VG+AARNKLIKHNLRLVLFVI KYF D
Sbjct: 232 KEDLQQELTREPADGELADATNMSITQVRKAIDVGQAARNKLIKHNLRLVLFVINKYFTD 291
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FA+GPRFQDLCQAGVKGLITAIDRFEP RRFRLSTY LFWIRHAIIRSMT+S+FTRVPFG
Sbjct: 292 FASGPRFQDLCQAGVKGLITAIDRFEPNRRFRLSTYSLFWIRHAIIRSMTLSNFTRVPFG 351
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES VR EIQ+AK EL FEL+R PT+EEII+ V+ISPERY +V+KASK ILSL+SR
Sbjct: 352 LES-----VRAEIQKAKTELTFELQRSPTEEEIIERVHISPERYHDVIKASKSILSLNSR 406
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEEFINGI D DGV +N++QPALLRLALDDVLDSLKPKESLVIR RFGLDGKGDR
Sbjct: 407 HTTTQEEFINGIVDDDGVNGDNRKQPALLRLALDDVLDSLKPKESLVIRXRFGLDGKGDR 466
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHEVK LMKLKH R+DYLR+++V
Sbjct: 467 TLGEIAGNLNISREMVRKHEVKALMKLKHSARLDYLRRYVV 507
>gi|356509297|ref|XP_003523387.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 509
Score = 682 bits (1761), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 343/521 (65%), Positives = 414/521 (79%), Gaps = 15/521 (2%)
Query: 1 MGVVTISSSPARSPIGLSTISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETPKR 60
MGVVT+S S +R+P+G +T KRPLIVAFK DK N+ AL + QE+IP+P+ET K+
Sbjct: 1 MGVVTVSGSASRTPLGFNTKFSTHRLKRPLIVAFKGDKHNDSALVATQEKIPVPVETAKK 60
Query: 61 HQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYADGV 120
QK+R +L + E+SP ++DVDYNEAAA LENIYKLSPA T + D
Sbjct: 61 TQKKRIGKSNKLPK------RESSPSSMDVDYNEAAAMLENIYKLSPASHTGNAECIDDK 114
Query: 121 VKRGRQRRKRIGEVEKKSDDVSGKPVVR--NQVKRPKRLSLDKRIELRKNE-DEKVVTKT 177
+KR +R K++ + E + ++ G VVR N+ K+ KRL+LD+RI L+ N+ ++V+
Sbjct: 115 IKRVSRRGKKVVD-ESEEKELKGDRVVRRQNKNKKAKRLTLDQRISLKNNKRGDEVIPTR 173
Query: 178 RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
+K + ++ EKIE+L+REYS S D +S+DWK+M+IPPVLSS+EH WLFKLMQPMK +QV
Sbjct: 174 KKRNFRNRIEKIEELIREYSVSNDFISMDWKRMRIPPVLSSSEHAWLFKLMQPMKALLQV 233
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
KE LQK+L REP D ELA+ATNMS QVKK ++VG+AARNKLIKHNLRLVLFVI KYF D
Sbjct: 234 KEDLQKELAREPADGELADATNMSITQVKKAIDVGQAARNKLIKHNLRLVLFVINKYFTD 293
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FA+GPRFQDLCQAGVKGLITAIDRFEP RRFRLSTY LFWIRHAIIRSMT+SSF RVPFG
Sbjct: 294 FASGPRFQDLCQAGVKGLITAIDRFEPNRRFRLSTYSLFWIRHAIIRSMTLSSFIRVPFG 353
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES VR EIQ+AK EL F+L+R PT+EEII+ V+ISPERY +++KASK ILSL+SR
Sbjct: 354 LES-----VRAEIQKAKTELTFKLQRSPTEEEIIERVHISPERYHDIIKASKSILSLNSR 408
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEEFINGI D DGV +N++QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR
Sbjct: 409 HTTTQEEFINGIVDDDGVNGDNRKQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 468
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIAGNLNISREMVRKHEVK LMKL H R+DYLR+++V
Sbjct: 469 TLGEIAGNLNISREMVRKHEVKALMKLNHSARLDYLRRYVV 509
>gi|297812573|ref|XP_002874170.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp.
lyrata]
gi|297320007|gb|EFH50429.1| hypothetical protein ARALYDRAFT_489269 [Arabidopsis lyrata subsp.
lyrata]
Length = 517
Score = 674 bits (1738), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 353/532 (66%), Positives = 423/532 (79%), Gaps = 29/532 (5%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALF-SPQEQIPLPIET 57
MGVV ISSS ARSP+GLS+ ++HRS+ K+P IVAFKAD S+N AL P+EQ+ +P E
Sbjct: 1 MGVVFISSSAARSPLGLSSDLLTHRSSLKKPSIVAFKADDSSNSALIIPPREQVLIPAE- 59
Query: 58 PKRHQKRRENSRKRL----ERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTT-S 112
K ++K+R +R++ ++ + + A C+L VDY EAAA+LE+IYKLSPA TT
Sbjct: 60 -KHNEKKRVVTRRKPCKAPKKPSSLEHNSAPSCSLGVDYYEAAARLESIYKLSPATTTLD 118
Query: 113 EVKYADGVVKRG---RQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNE 169
E DG K R++RK+ GE EKK VVRN V + KRLSLDKRI L++N
Sbjct: 119 EEDVEDGGSKAKVSPRRKRKQSGE-EKKV-------VVRNNVMKEKRLSLDKRIALKRNV 170
Query: 170 DEK--VVTKTRK-TDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFK 226
EK V++ +K T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVLSSTEH WLFK
Sbjct: 171 QEKPVVISAEKKVTKKQQEEEKIERLVRDYSASNDIVSLDWKKMKIPPVLSSTEHAWLFK 230
Query: 227 LMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRL 286
LMQPMK ++VK++LQK LGREP + E+A NM+A +VKK +E+GRAARNKLIKHNLRL
Sbjct: 231 LMQPMKALLEVKDELQKSLGREPREAEIAGEINMTAGEVKKKIEIGRAARNKLIKHNLRL 290
Query: 287 VLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSM 346
VLFV+ KYF DF NGP+FQDLCQAG++GLITAIDRFEPKR+FRLSTYGLFWIRHAIIRSM
Sbjct: 291 VLFVMNKYFHDFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTYGLFWIRHAIIRSM 350
Query: 347 TVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMK 406
T S+FTRVPFGLES VR EI + K ELLFEL R+PT++E+++ + I+PERYREV++
Sbjct: 351 TTSNFTRVPFGLES-----VRVEIFKTKTELLFELGRLPTEDEVVERLKITPERYREVLR 405
Query: 407 ASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIR 466
A+KP+LSL+S+H VTQEEFINGITDVDGV N RQPALLRLALDDVLDSLKPKESLVIR
Sbjct: 406 AAKPVLSLNSKHSVTQEEFINGITDVDGVGANNSRQPALLRLALDDVLDSLKPKESLVIR 465
Query: 467 QRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
QR+GLDGKGDRTLGEIAGNLNISREMVRKHEVK LMKLKH RVDYLRQ++V
Sbjct: 466 QRYGLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQYIV 517
>gi|225462725|ref|XP_002268709.1| PREDICTED: RNA polymerase sigma factor rpoD [Vitis vinifera]
gi|302143685|emb|CBI22546.3| unnamed protein product [Vitis vinifera]
Length = 518
Score = 673 bits (1737), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 368/522 (70%), Positives = 430/522 (82%), Gaps = 10/522 (1%)
Query: 1 MGVVTISSSPA--RSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIE 56
MGVVT+SSS + R+P GL+ +H++ +RPL++AFKADK+ N AL +P E IPLPIE
Sbjct: 1 MGVVTVSSSASASRTPFGLNAKFSNHQTPLRRPLVLAFKADKAKNIALVTPHEPIPLPIE 60
Query: 57 TPKRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKY 116
T K H+KR + K +RVK V +DE SPC++++DYNEAAAKLENIYKLSPA SE +
Sbjct: 61 TSKDHKKRLRRASKPSKRVKAVSTDEVSPCSVELDYNEAAAKLENIYKLSPATDVSEAED 120
Query: 117 ADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTK 176
+ VV+RGRQRRKR+ + K++ VVR K+PKRLSL+KRI L K + EK V
Sbjct: 121 LERVVRRGRQRRKRVTLADDKAEKEVSDNVVRIHNKKPKRLSLEKRIALSKMKQEKAVAS 180
Query: 177 T-RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFV 235
+K DSK+E E I+ LVREYS STDLVSLDWKKMKIPPVL +EH WLFKLMQPMK +
Sbjct: 181 IQKKRDSKNEDENIDVLVREYSASTDLVSLDWKKMKIPPVLPPSEHAWLFKLMQPMKGLL 240
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
+VK+ LQKDLGREPTD ELAEA +MSA QV++ +EVG+AARNKLIKHNLRLVLFVI KYF
Sbjct: 241 EVKDNLQKDLGREPTDGELAEAMSMSAVQVRRHMEVGQAARNKLIKHNLRLVLFVINKYF 300
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVP 355
Q+FANGP+FQDLCQAGVKGLITAIDRFEPKR FRLSTYGLFWIRHAI+RSMT+SSFTRV
Sbjct: 301 QEFANGPKFQDLCQAGVKGLITAIDRFEPKRSFRLSTYGLFWIRHAIMRSMTLSSFTRVS 360
Query: 356 FGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLH 415
FGLES VR EIQRAKLELLF+L+R+PT+EEII+ V ISPERY EVM+ASK +LSLH
Sbjct: 361 FGLES-----VRVEIQRAKLELLFKLQRLPTEEEIIEKVGISPERYHEVMRASKSVLSLH 415
Query: 416 SRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG 475
+RH TQEE+INGITDV+GV + RQ ALLRLALDDVLDSLKPKESLV+RQR+GLDGKG
Sbjct: 416 ARHATTQEEYINGITDVEGVGGDRGRQLALLRLALDDVLDSLKPKESLVMRQRYGLDGKG 475
Query: 476 DRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
DRTLGEIAGNL+ISREMVRKHEVK LMKLKHP RVDYLRQ++
Sbjct: 476 DRTLGEIAGNLSISREMVRKHEVKALMKLKHPARVDYLRQYI 517
>gi|15237896|ref|NP_197800.1| RNA polymerase sigma factor [Arabidopsis thaliana]
gi|75267675|sp|Q9ZNX9.1|SIGE_ARATH RecName: Full=RNA polymerase sigma factor sigE,
chloroplastic/mitochondrial; Short=Sigma factor E;
Short=Sigma-E; AltName: Full=RNA polymerase sigma factor
sig5; Short=Atsig5; Short=Sigma factor 5; Flags:
Precursor
gi|4033838|emb|CAA77213.1| sigma-like factor [Arabidopsis thaliana]
gi|4972299|dbj|BAA78109.1| RNA polymerase sigma subunit SigE [Arabidopsis thaliana]
gi|10178160|dbj|BAB11572.1| sigma-like factor [Arabidopsis thaliana]
gi|222423237|dbj|BAH19595.1| AT5G24120 [Arabidopsis thaliana]
gi|332005876|gb|AED93259.1| RNA polymerase sigma factor [Arabidopsis thaliana]
Length = 517
Score = 673 bits (1737), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 347/529 (65%), Positives = 416/529 (78%), Gaps = 23/529 (4%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALF-SPQEQIPLPIET 57
MGVV+ISSS ARSP+GL ++HRS+ K+P IVAFKAD S+N AL P+EQ+ +P E
Sbjct: 1 MGVVSISSSAARSPLGLGNDLLTHRSSLKKPSIVAFKADDSSNSALIIPPREQVLIPAE- 59
Query: 58 PKRHQKRRENSRKRLERVK----GVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTT-S 112
K ++K+RE +R++ + + + A C+L VDYNEAAA+LE+IYKLSPA TT
Sbjct: 60 -KHNEKKREVTRRKPCKTPKKPLSLEHNSAPSCSLGVDYNEAAARLESIYKLSPATTTLV 118
Query: 113 EVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEK 172
E DG K RR++ +K K VVRN VK+ KR+SLDKRI L++N EK
Sbjct: 119 EDDVEDGGSKAKVSRRRK-----RKESGEEKKVVVRNNVKKEKRMSLDKRIALKRNVQEK 173
Query: 173 VVTKT---RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQ 229
V + + T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVLSSTEH WLFKLMQ
Sbjct: 174 PVVASVDKKVTKRQQEEEKIERLVRDYSASNDIVSLDWKKMKIPPVLSSTEHAWLFKLMQ 233
Query: 230 PMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLF 289
PMK ++VK+ LQK LGREP + E+A NM+A +VKK +E+GRAARNKLIKHNLRLVLF
Sbjct: 234 PMKALLEVKDVLQKSLGREPREAEIAGEINMTAGEVKKKIEIGRAARNKLIKHNLRLVLF 293
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
V+ KYF +F NGP+FQDLCQAG++GLITAIDRFEPKR+FRLSTYGLFWIRHAIIRSMT S
Sbjct: 294 VMNKYFHEFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTYGLFWIRHAIIRSMTTS 353
Query: 350 SFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASK 409
+FTRVPFGLES VR EI +AK EL FE+ R PT++E+++ + I+PERYREV++A+K
Sbjct: 354 NFTRVPFGLES-----VRVEIYKAKTELWFEMGRPPTEDEVVERLKITPERYREVLRAAK 408
Query: 410 PILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
P+LSL+S+H VTQEEFINGITDVDGV N RQPALLRLALDDVLDSLKPKESLVIRQR+
Sbjct: 409 PVLSLNSKHSVTQEEFINGITDVDGVGANNSRQPALLRLALDDVLDSLKPKESLVIRQRY 468
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GLDGKGDRTLGEIAGNLNISREMVRKHEVK LMKLKH RVDYLRQ++V
Sbjct: 469 GLDGKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQYIV 517
>gi|357463833|ref|XP_003602198.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
gi|355491246|gb|AES72449.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
Length = 514
Score = 671 bits (1730), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 343/521 (65%), Positives = 415/521 (79%), Gaps = 10/521 (1%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT+SSS AR+P+GL+ +H KRPL VAFK DK N+ AL + QE+IP ++
Sbjct: 1 MGVVTVSSSAARTPLGLNAKFSTHHPVLKRPLTVAFKGDKQNDTALVATQEKIPTQVKPA 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K H+KR + K ++ + V ++E P +LDVDYNEAAA LENIYKLSP + Y +
Sbjct: 61 KTHKKRIAKTNKLPKKPRAVCTEETFPSSLDVDYNEAAAILENIYKLSPTTDICDADYIE 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTR 178
+KR +R K+IG+V K +D + VVRNQ + KR++LD+RI L+ +E+ + V TR
Sbjct: 121 RKIKRVSRRGKKIGDVSK--EDSNSDRVVRNQKTKAKRMNLDERIALKTSENSEDVIPTR 178
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
K + + EKI++L+REYS DLVSLDWKKMKIPPVL S+EH +LFKLMQPMK +QV
Sbjct: 179 KKRNPRSRVEKIDELLREYSVPADLVSLDWKKMKIPPVLPSSEHAFLFKLMQPMKALLQV 238
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K+ LQK+L REPT+ E+A+ATNM QVKK +EVGRAARNKLIKHNLRLVLFVI +YF D
Sbjct: 239 KDDLQKELEREPTEDEIADATNMHTTQVKKAIEVGRAARNKLIKHNLRLVLFVINRYFSD 298
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPFG 357
FAN PRFQDLCQAGVKGLIT+IDRFEP RRFRLSTY LFWIRHAIIRSMT++SF+RVPFG
Sbjct: 299 FANSPRFQDLCQAGVKGLITSIDRFEPNRRFRLSTYSLFWIRHAIIRSMTLASFSRVPFG 358
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
LES VR EI+RAK+EL F+L+R PT+EEII+ V++SPERYR+VMKASKP+LSLHSR
Sbjct: 359 LES-----VRAEIRRAKIELSFQLQRSPTEEEIIEKVHVSPERYRDVMKASKPLLSLHSR 413
Query: 418 HGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
H TQEEFING+ D GV+ +N+RQPALLRLALDDVLDSLKPKE+LVIRQRFGLDGKGDR
Sbjct: 414 HLTTQEEFINGVVDDGGVDGDNRRQPALLRLALDDVLDSLKPKENLVIRQRFGLDGKGDR 473
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
TLGEIA NLNISREMVRKHEVK LMKLKH R+DYLR+++V
Sbjct: 474 TLGEIASNLNISREMVRKHEVKALMKLKHSARLDYLRRYVV 514
>gi|312282679|dbj|BAJ34205.1| unnamed protein product [Thellungiella halophila]
Length = 511
Score = 663 bits (1711), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 346/526 (65%), Positives = 411/526 (78%), Gaps = 23/526 (4%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVV ISSS ARSP+GLS+ ++HRS+ K+P IVAFKAD S N AL P EQI +P E
Sbjct: 1 MGVVFISSSAARSPLGLSSDLLTHRSSLKKPSIVAFKADDSTNSALIIPSEQILIPAE-- 58
Query: 59 KRHQKRRENSRKRLERVKGVFS---DEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVK 115
K+ +KR RK + K S + A C+L VDYNEAAA+LE+IYKLSPA + +
Sbjct: 59 KQKEKRVVTKRKPCKTPKKPSSLDHNLAPSCSLGVDYNEAAARLESIYKLSPATSVED-- 116
Query: 116 YADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVT 175
DG + + +K K VVRN + KRLSLDKRI L++N EK +
Sbjct: 117 DIDGSKVKVSR------RRRRKEGGEEKKVVVRNNGMKEKRLSLDKRIALKRNIQEKPLV 170
Query: 176 KTRK---TDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMK 232
+ + T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVL STEH WLFKLMQPMK
Sbjct: 171 PSAQKKVTKKQQEEEKIERLVRDYSASHDIVSLDWKKMKIPPVLPSTEHAWLFKLMQPMK 230
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIK 292
+QVK++LQK LGREP + E+A NMSAA+VK+ +E+GRAARNKLIKHNLRLVLFV+
Sbjct: 231 ALLQVKDELQKSLGREPRETEIAGEINMSAAEVKRKIEIGRAARNKLIKHNLRLVLFVMN 290
Query: 293 KYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT 352
KYFQDF NGP+FQDLCQAG++GLITAIDRFEPKR+FRLSTYGLFWIRHAIIRSMT S+FT
Sbjct: 291 KYFQDFTNGPKFQDLCQAGMRGLITAIDRFEPKRKFRLSTYGLFWIRHAIIRSMTTSNFT 350
Query: 353 RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPIL 412
RVPFGLES VR EI + K+ELLFEL R+PT++E+++ + ISPERYREV++A+KP+
Sbjct: 351 RVPFGLES-----VRVEIYKTKMELLFELGRLPTEDEVVERLKISPERYREVLRAAKPVF 405
Query: 413 SLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
SL+S+H VTQEEFINGITDVDGV +N+RQPA+LRLALDDVLDSLKPKESLVIRQR+GLD
Sbjct: 406 SLNSKHSVTQEEFINGITDVDGVGADNRRQPAILRLALDDVLDSLKPKESLVIRQRYGLD 465
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GKGDRTLGEIAGNLNISREMVRKHEVK LMKLKH RVDYLRQ++V
Sbjct: 466 GKGDRTLGEIAGNLNISREMVRKHEVKALMKLKHQARVDYLRQYIV 511
>gi|115465727|ref|NP_001056463.1| Os05g0586600 [Oryza sativa Japonica Group]
gi|30698488|dbj|BAC76601.1| Sig5 [Oryza sativa Japonica Group]
gi|30698518|dbj|BAC76607.1| plastid sigma factor SIG5 [Oryza sativa Japonica Group]
gi|113580014|dbj|BAF18377.1| Os05g0586600 [Oryza sativa Japonica Group]
Length = 500
Score = 462 bits (1189), Expect = e-127, Method: Compositional matrix adjust.
Identities = 240/429 (55%), Positives = 316/429 (73%), Gaps = 10/429 (2%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRN 149
DYNE AA LE+IYKLSPAV + + + + +RKR G V +S + +
Sbjct: 81 TDYNEVAAALESIYKLSPAVVEEKDADEEDEKSK-QTKRKRKGRV-GRSRNATVTVRSSR 138
Query: 150 QVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEK-LVREYSYSTDLVSLDWK 208
+ +R +R+ L KR+E+R+ E+E+ K + DE E+ L+RE++ STD+ SLDWK
Sbjct: 139 RRRRGQRMDLGKRVEMRRREEEEGGGGAGKVE--DEERGFEEMLLREHAVSTDMGSLDWK 196
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+MKIPPVL+S + LF++MQPMK +++KE L+ ++ EP D +LAEA NMS Q+++
Sbjct: 197 RMKIPPVLTSAQSIRLFRIMQPMKAIMEMKENLENEVQSEPNDAQLAEAMNMSVLQMRRH 256
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
LEVGRAARNKLIKHNLRLVL+ I KY+ D +N RF D+CQAG GLITAIDRFEPKR F
Sbjct: 257 LEVGRAARNKLIKHNLRLVLYTINKYYPDMSNDERFDDICQAGANGLITAIDRFEPKRGF 316
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
R+STY LFWIRH+I+R++T+S+FTR PF +ES R EI RA+ EL FEL R PT+E
Sbjct: 317 RISTYALFWIRHSIVRAITLSNFTRFPFAMESE-----RQEIHRAREELAFELGRAPTEE 371
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRL 448
E+++ V +SP RYR+V++ ++P SLH+R+ VTQEE IN +TD D + + LLRL
Sbjct: 372 EVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQEELINEVTDDDAIGVDTSSHNTLLRL 431
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A+DD+LDSLKPKES+VIRQRFGLDG+G RTL EIAGNLNISREMVRK+E+K LMKLKHPT
Sbjct: 432 AIDDLLDSLKPKESVVIRQRFGLDGRGKRTLSEIAGNLNISREMVRKYELKALMKLKHPT 491
Query: 509 RVDYLRQHM 517
RV+YLR++M
Sbjct: 492 RVEYLRRYM 500
>gi|125553511|gb|EAY99220.1| hypothetical protein OsI_21178 [Oryza sativa Indica Group]
Length = 500
Score = 462 bits (1188), Expect = e-127, Method: Compositional matrix adjust.
Identities = 240/429 (55%), Positives = 316/429 (73%), Gaps = 10/429 (2%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRN 149
DYNE AA LE+IYKLSPAV + + + + +RKR G V +S + +
Sbjct: 81 TDYNEVAAALESIYKLSPAVVEEKDADEEDEKSK-QTKRKRKGRV-GRSRNATVTVRSSR 138
Query: 150 QVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEK-LVREYSYSTDLVSLDWK 208
+ +R +R+ L KR+E+R+ E+E+ K + DE E+ L+RE++ STD+ SLDWK
Sbjct: 139 RRRRGQRMDLGKRVEMRRREEEEGGGGAGKVE--DEERGFEEMLLREHAVSTDMGSLDWK 196
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+MKIPPVL+S + LF++MQPMK +++KE L+ ++ EP D +LAEA NMS Q+++
Sbjct: 197 RMKIPPVLTSAQSIRLFRIMQPMKAILEMKENLENEVQSEPNDAQLAEAMNMSVLQMRRH 256
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
LEVGRAARNKLIKHNLRLVL+ I KY+ D +N RF D+CQAG GLITAIDRFEPKR F
Sbjct: 257 LEVGRAARNKLIKHNLRLVLYTINKYYPDMSNDERFDDICQAGANGLITAIDRFEPKRGF 316
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
R+STY LFWIRH+I+R++T+S+FTR PF +ES R EI RA+ EL FEL R PT+E
Sbjct: 317 RISTYALFWIRHSIVRAITLSNFTRFPFAMESE-----RQEIHRAREELAFELGRAPTEE 371
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRL 448
E+++ V +SP RYR+V++ ++P SLH+R+ VTQEE IN +TD D + + LLRL
Sbjct: 372 EVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQEELINEVTDDDAIGVDTSSHNTLLRL 431
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A+DD+LDSLKPKES+VIRQRFGLDG+G RTL EIAGNLNISREMVRK+E+K LMKLKHPT
Sbjct: 432 AIDDLLDSLKPKESVVIRQRFGLDGRGKRTLSEIAGNLNISREMVRKYELKALMKLKHPT 491
Query: 509 RVDYLRQHM 517
RV+YLR++M
Sbjct: 492 RVEYLRRYM 500
>gi|222632729|gb|EEE64861.1| hypothetical protein OsJ_19718 [Oryza sativa Japonica Group]
Length = 457
Score = 461 bits (1187), Expect = e-127, Method: Compositional matrix adjust.
Identities = 240/429 (55%), Positives = 316/429 (73%), Gaps = 10/429 (2%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRN 149
DYNE AA LE+IYKLSPAV + + + + +RKR G V +S + +
Sbjct: 38 TDYNEVAAALESIYKLSPAVVEEKDADEEDEKSK-QTKRKRKGRV-GRSRNATVTVRSSR 95
Query: 150 QVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEK-LVREYSYSTDLVSLDWK 208
+ +R +R+ L KR+E+R+ E+E+ K + DE E+ L+RE++ STD+ SLDWK
Sbjct: 96 RRRRGQRMDLGKRVEMRRREEEEGGGGAGKVE--DEERGFEEMLLREHAVSTDMGSLDWK 153
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+MKIPPVL+S + LF++MQPMK +++KE L+ ++ EP D +LAEA NMS Q+++
Sbjct: 154 RMKIPPVLTSAQSIRLFRIMQPMKAIMEMKENLENEVQSEPNDAQLAEAMNMSVLQMRRH 213
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
LEVGRAARNKLIKHNLRLVL+ I KY+ D +N RF D+CQAG GLITAIDRFEPKR F
Sbjct: 214 LEVGRAARNKLIKHNLRLVLYTINKYYPDMSNDERFDDICQAGANGLITAIDRFEPKRGF 273
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
R+STY LFWIRH+I+R++T+S+FTR PF +ES R EI RA+ EL FEL R PT+E
Sbjct: 274 RISTYALFWIRHSIVRAITLSNFTRFPFAMESE-----RQEIHRAREELAFELGRAPTEE 328
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRL 448
E+++ V +SP RYR+V++ ++P SLH+R+ VTQEE IN +TD D + + LLRL
Sbjct: 329 EVMKKVGLSPARYRDVVRMTRPTYSLHARNRVTQEELINEVTDDDAIGVDTSSHNTLLRL 388
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A+DD+LDSLKPKES+VIRQRFGLDG+G RTL EIAGNLNISREMVRK+E+K LMKLKHPT
Sbjct: 389 AIDDLLDSLKPKESVVIRQRFGLDGRGKRTLSEIAGNLNISREMVRKYELKALMKLKHPT 448
Query: 509 RVDYLRQHM 517
RV+YLR++M
Sbjct: 449 RVEYLRRYM 457
>gi|326503440|dbj|BAJ86226.1| predicted protein [Hordeum vulgare subsp. vulgare]
gi|326503904|dbj|BAK02738.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 496
Score = 451 bits (1160), Expect = e-124, Method: Compositional matrix adjust.
Identities = 232/429 (54%), Positives = 306/429 (71%), Gaps = 11/429 (2%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRK-RIGEVEKKSDDVSGKPVVR 148
DY+E AA LE +YKLSP + + K + ++R++ R + + + V
Sbjct: 78 TDYDEVAATLETLYKLSPVIVEEDGKSSKKQAATKKKRKQGRTKPAAATTTTATPRRTVV 137
Query: 149 NQVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWK 208
+ +R +R+ L KR+E+R D+ + D + E E L+RE++ STD+ SLDW+
Sbjct: 138 VRSQRRRRMDLGKRVEMR---DQAAGKEDEHRDGERAFE--EALLREHAVSTDMGSLDWR 192
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+MKIPPVLS+ + LFK+MQPMK ++V+E ++ +L EPT+ E+AEA NM ++++
Sbjct: 193 RMKIPPVLSAPQSARLFKIMQPMKAILEVQENMRSELQSEPTEAEVAEAMNMPVQRLRRL 252
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
+VGRAARNKLIKHNLRLVL+ I KY+ D RF DLCQAG GLITAIDRFEPKR F
Sbjct: 253 RDVGRAARNKLIKHNLRLVLYAINKYYPDMTGDERFADLCQAGANGLITAIDRFEPKRGF 312
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
R+STY LFWIRH+++R+MT+SSFTR PF +ES R EI RA+ EL FEL R PTDE
Sbjct: 313 RISTYALFWIRHSVVRAMTLSSFTRFPFAMESE-----RQEINRAREELSFELGRTPTDE 367
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRL 448
E ++ V +SP RYR+V++ ++P SLHSR+ VTQEE IN +TDVD + + + LLRL
Sbjct: 368 ETMKKVGLSPARYRDVVRMTRPAYSLHSRNRVTQEELINEVTDVDAIGVDTHKHNRLLRL 427
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A+DD+LDSLKPKES+VIRQRFGLDG+G RTL EIAGNL ISREMVRK+E+K LMKLKHPT
Sbjct: 428 AIDDLLDSLKPKESVVIRQRFGLDGRGRRTLSEIAGNLRISREMVRKYELKALMKLKHPT 487
Query: 509 RVDYLRQHM 517
RVDYLR++M
Sbjct: 488 RVDYLRRYM 496
>gi|242089037|ref|XP_002440351.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor]
gi|241945636|gb|EES18781.1| hypothetical protein SORBIDRAFT_09g030110 [Sorghum bicolor]
Length = 501
Score = 449 bits (1156), Expect = e-123, Method: Compositional matrix adjust.
Identities = 239/432 (55%), Positives = 309/432 (71%), Gaps = 13/432 (3%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVV-- 147
DYNE AA LE+IYKLSPAV E + +K+ V+G+ V
Sbjct: 79 TDYNEVAAALESIYKLSPAVEVDEEN--ERHGGHDDDDEGGKKAKKKRKSRVAGRSTVIV 136
Query: 148 -RNQVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLD 206
+ +R +R+ L KR+E++ + + + + + E E++ L+RE+S STD+ SLD
Sbjct: 137 KSRRRRRGRRMDLGKRVEMKSAAVSREGDEDDEGEREREFEEM--LLREHSVSTDMGSLD 194
Query: 207 WKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVK 266
WK+MKIPPVL+S++ LFK MQPMK +V+E L+++L R+PTD ELAEAT M+ Q++
Sbjct: 195 WKRMKIPPVLTSSQSARLFKTMQPMKAIFEVQESLREELQRDPTDAELAEATGMTVHQLR 254
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
+ L+VGRAARNKLIKHNLRLV + I KY+ D RF DLCQAG GLITAIDRFEPKR
Sbjct: 255 RRLDVGRAARNKLIKHNLRLVPYAINKYYPDMGTDERFDDLCQAGANGLITAIDRFEPKR 314
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
FR+STY LFWIRH+I+R+MT+SSFTR PF +ES R EI +A+ EL FEL R T
Sbjct: 315 GFRISTYALFWIRHSIVRAMTLSSFTRFPFAMESE-----RQEIGKAREELAFELGRPAT 369
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE-NENQRQPAL 445
DEE+ + V ISP+RYR+V++ ++P SLH+R+ VTQEE IN +TD D + + R L
Sbjct: 370 DEEVRRKVGISPQRYRDVLRMTRPTYSLHARNRVTQEELINEVTDDDAIGVDAGGRHNTL 429
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
LRLA+DD+LDSLKPKESLVIRQRFGLDG+G RTL EIAGNL+ISREMVRK+E+K LMKLK
Sbjct: 430 LRLAIDDLLDSLKPKESLVIRQRFGLDGRGKRTLSEIAGNLSISREMVRKYELKALMKLK 489
Query: 506 HPTRVDYLRQHM 517
HPTRV+YLR++M
Sbjct: 490 HPTRVEYLRRYM 501
>gi|326490962|dbj|BAJ90342.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 496
Score = 447 bits (1151), Expect = e-123, Method: Compositional matrix adjust.
Identities = 231/429 (53%), Positives = 305/429 (71%), Gaps = 11/429 (2%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRK-RIGEVEKKSDDVSGKPVVR 148
DY+E AA LE +YKLSP + + K + ++R++ R + + + V
Sbjct: 78 TDYDEVAATLETLYKLSPVIVEEDGKSSKKQAATKKKRKQGRTKPAAATTTTATPRRTVV 137
Query: 149 NQVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWK 208
+ +R +R+ L KR+E+R D+ + D + E E L+RE++ STD+ SLDW+
Sbjct: 138 VRSQRRRRMDLGKRVEMR---DQAAGKEDEHRDGERAFE--EALLREHAVSTDMGSLDWR 192
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+MKIPPVLS+ + LFK+MQPMK ++V+E ++ +L EPT+ E+AEA NM ++++
Sbjct: 193 RMKIPPVLSAPQSARLFKIMQPMKAILEVQENMRSELQSEPTEAEVAEAMNMPVQRLRRL 252
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
+VGRAARNKLIKHNLRLVL+ I KY+ D RF DLCQAG GLITAIDRFEPKR F
Sbjct: 253 RDVGRAARNKLIKHNLRLVLYAINKYYPDMTGDERFADLCQAGANGLITAIDRFEPKRGF 312
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
R+STY L WIRH+++R+MT+SSFTR PF +ES R EI RA+ EL FEL R PTDE
Sbjct: 313 RISTYALSWIRHSVVRAMTLSSFTRFPFAMESE-----RQEINRAREELSFELGRTPTDE 367
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRL 448
E ++ V +SP RYR+V++ ++P SLHSR+ VTQEE IN +TDVD + + + LLRL
Sbjct: 368 ETMKKVGLSPARYRDVVRMTRPAYSLHSRNRVTQEELINEVTDVDAIGVDTHKHNRLLRL 427
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A+DD+LDSLKPKES+VIRQRFGLDG+G RTL EIAGNL ISREMVRK+E+K LMKLKHPT
Sbjct: 428 AIDDLLDSLKPKESVVIRQRFGLDGRGRRTLSEIAGNLRISREMVRKYELKALMKLKHPT 487
Query: 509 RVDYLRQHM 517
RVDYLR++M
Sbjct: 488 RVDYLRRYM 496
>gi|413946761|gb|AFW79410.1| hypothetical protein ZEAMMB73_457711 [Zea mays]
Length = 497
Score = 447 bits (1149), Expect = e-123, Method: Compositional matrix adjust.
Identities = 239/432 (55%), Positives = 307/432 (71%), Gaps = 15/432 (3%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRN 149
DYNE AA LE IYKLSPAV E K G G K+ K+ V+G+ V
Sbjct: 77 TDYNEVAAALETIYKLSPAVEVEEKKRQGGNEDDGGGEAKK-----KRKRRVAGRSTVVV 131
Query: 150 QVKRPKR---LSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLD 206
+ +R + + L KR+E+ K + + + + E E E L+RE+S STD+ SLD
Sbjct: 132 RSRRRRGGRRMDLGKRVEM-KGAAAASREQQQGGEEQGEREFEEMLLREHSVSTDMGSLD 190
Query: 207 WKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVK 266
WK+MKIPPVL+S++ LFK MQPMK + +E L+++L R+PTD E+AEAT M+ Q++
Sbjct: 191 WKRMKIPPVLTSSQSARLFKTMQPMKAIFEAQESLREELQRDPTDAEVAEATGMTVHQLR 250
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
+ L+VGRAARNKLIKHNLRLV + + KY+ D RF +LCQAG GLITAIDRFEPKR
Sbjct: 251 RRLDVGRAARNKLIKHNLRLVPYALNKYYPDMGGDERFDELCQAGANGLITAIDRFEPKR 310
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
FR+STY LFWIRH+I+R+MT+SSFTR PF +ES R EI RA+ EL FEL R PT
Sbjct: 311 GFRISTYALFWIRHSIVRAMTLSSFTRFPFAMESE-----RQEIGRAREELAFELGRPPT 365
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE-NENQRQPAL 445
DEE+ V +SP+RYR+V++ ++P SLH+R+ VTQEE I +TD + V + + AL
Sbjct: 366 DEEVRARVGLSPQRYRDVLRMARPTYSLHARNRVTQEELIGEVTDAEAVGVDAGGKHDAL 425
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
LRLA+DD+LDSLKPKESLVIRQRFGLDG+G RTL E+AGNL+ISREMVRK+E+K LMKLK
Sbjct: 426 LRLAIDDLLDSLKPKESLVIRQRFGLDGRGRRTLSEVAGNLSISREMVRKYELKALMKLK 485
Query: 506 HPTRVDYLRQHM 517
HPTRV+YLR++M
Sbjct: 486 HPTRVEYLRRYM 497
>gi|357132378|ref|XP_003567807.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 524
Score = 422 bits (1085), Expect = e-115, Method: Compositional matrix adjust.
Identities = 226/435 (51%), Positives = 300/435 (68%), Gaps = 21/435 (4%)
Query: 90 VDYNEAAAKLENIYKLSPAVTTSEVKYADGVVKRGRQRRKRIGEVEKKSDDVSGKPVVRN 149
DY E AA LE +Y+LSP V + + + +++++R + + VV
Sbjct: 104 TDYGEVAAVLETLYQLSPTVVEEDEEESSIKEAEKKKQKQRRKTKTLPAMKTT---VVVR 160
Query: 150 QVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEK-LVREYSYSTDLVSLDWK 208
+R +R+ L KR+E+R+ K DE + E+ L+RE+ STD+ LDW+
Sbjct: 161 SRRRGRRMDLGKRVEMRE------AAAGGKLGGDDEAAEFEEALLREHGVSTDMGGLDWR 214
Query: 209 KMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC 268
+ KIPPVLS+ + LFKLMQPMK QVKE L+ +LGREPTD EL A NM+ ++++
Sbjct: 215 RTKIPPVLSAAHSSRLFKLMQPMKAIFQVKENLESELGREPTDAELGAAMNMAVPRLRRH 274
Query: 269 LEVGRAARNKLIKHNLRLVLFVIKKYFQDFA---NGPRFQDLCQAGVKGLITAIDRFEPK 325
+VGRAARNKLIKHNLRLVL+ I +Y+ D A +G +F+++CQAG GLITAIDRFEP+
Sbjct: 275 RDVGRAARNKLIKHNLRLVLYAINRYYPDMAGGGDGGKFEEVCQAGANGLITAIDRFEPR 334
Query: 326 RRFRLSTYGLFWIRHAIIRSM-TVSSFTRVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R FRLSTY LFW+RH+I R+M +SSFT PF +ES R EI +A+ EL +EL R
Sbjct: 335 RGFRLSTYALFWVRHSISRAMAALSSFTHFPFAMESE-----RREIGKAREELAWELGRA 389
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVD--GVENENQRQ 442
PTDEE ++ +SP RYR+V + S+P SLH+R+ VTQEE IN +TD D G + ++
Sbjct: 390 PTDEETMRKAGVSPARYRDVARMSRPAGSLHARNRVTQEELINEVTDADAVGAADTHRHS 449
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LLRLA+DD+LDSLKPKES+V+RQRFGLDG+G RTL EIAGNL ISREMVRK+E+K LM
Sbjct: 450 NRLLRLAIDDLLDSLKPKESVVMRQRFGLDGRGRRTLSEIAGNLRISREMVRKYELKALM 509
Query: 503 KLKHPTRVDYLRQHM 517
KLKHPTRV+YLR++M
Sbjct: 510 KLKHPTRVEYLRRYM 524
>gi|407327705|dbj|BAM45410.1| sigma factor 5 [Marchantia polymorpha]
Length = 635
Score = 301 bits (772), Expect = 5e-79, Method: Compositional matrix adjust.
Identities = 165/384 (42%), Positives = 245/384 (63%), Gaps = 17/384 (4%)
Query: 143 GKPVVRNQVKRPKRLSLDKRIELRKNEDE---KVVTKTRKTDSKDEH----EKIEKLVRE 195
+ +V +RL+L RI LR+ E K + K SKD H E EKL+ +
Sbjct: 258 ARAATAGEVTGKRRLNLVSRIALRRKRQELSKKDLDANVKI-SKDGHDIWSEDAEKLITK 316
Query: 196 YSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELA 255
Y+ S D +DW + +LS+ E L LM+P K + + + ++LGR+P+D E A
Sbjct: 317 YASSLDFGVVDWDSLS-RDLLSAEEEYSLASLMKPAKKLEKTFKAIGEELGRDPSDEEWA 375
Query: 256 EATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGL 315
+A + +K+ + +GRAARNKLI+HNLRLVLF KY +D ++ F DLCQ GV GL
Sbjct: 376 KAAQLDVHTLKRQVLLGRAARNKLIQHNLRLVLFQAHKYQKDNSSLSLF-DLCQEGVSGL 434
Query: 316 ITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS-SFTRVPFGLESTSIMQVRGEIQRAK 374
+ +D+F+PKR R STY ++W+R++I+R+MT S S R P+ ++ + I+RA+
Sbjct: 435 LHGVDKFDPKRGHRFSTYAVYWVRNSILRAMTRSGSVLRSPY-----NVAMHKWNIKRAR 489
Query: 375 LELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDG 434
L+LL EL+R TD E+++ + I+P+R+R+++++S S+H R +T EEF+ I D
Sbjct: 490 LDLLVELERAATDAEVMERLGIAPDRFRDIVRSSTRARSIHQRSLLTGEEFVENIVDSQN 549
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
+ + L L++DDVLDSLKPKES V+ QRFGLDGKG+RTL EI N+N+SREMVR
Sbjct: 550 RDGHSAAADTAL-LSIDDVLDSLKPKESFVLSQRFGLDGKGERTLSEIGKNMNLSREMVR 608
Query: 495 KHEVKGLMKLKHPTRVDYLRQHMV 518
++E GL+K+KHPTR+DYLR ++
Sbjct: 609 RYEACGLLKMKHPTRLDYLRNYLA 632
>gi|302810520|ref|XP_002986951.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii]
gi|300145356|gb|EFJ12033.1| hypothetical protein SELMODRAFT_43614 [Selaginella moellendorffii]
Length = 326
Score = 281 bits (720), Expect = 5e-73, Method: Compositional matrix adjust.
Identities = 150/334 (44%), Positives = 221/334 (66%), Gaps = 10/334 (2%)
Query: 187 EKIEKLVREYSYSTDLVSLDWKKMKIPPV-LSSTEHTWLFKLMQPMKVFVQVKEQLQKDL 245
++ E L++EY S ++ L+W K+ P + L+ E L M P K QV+ + + L
Sbjct: 1 QEAEVLIKEYGASGSMLVLNWDKL--PRLRLTGPEEVRLAWFMAPAKRLQQVRLKFFEHL 58
Query: 246 GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
REP++ E A+ MS +++ L+ G+AARNK+IKHNLRLV +KYF++ +
Sbjct: 59 KREPSEEEWAKVAEMSVQTLRRLLQSGQAARNKMIKHNLRLVAHQARKYFKEELS-LSLL 117
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT-VSSFTRVPFGLESTSIM 364
DLCQ GV GL++A+D+F+PK+ +R STY ++W++++I+R+ T + RVP+ + + +
Sbjct: 118 DLCQEGVPGLMSAVDKFDPKKGYRFSTYAVYWVKNSILRAQTRLGHIVRVPYNVAAQKMT 177
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
IQR + +L EL R PT EE+I + + RY EV++ P SL++R VT EE
Sbjct: 178 -----IQRKRAQLSLELDREPTHEEVITELKMDSRRYFEVLRTGAPRRSLNARSKVTGEE 232
Query: 425 FINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
I+ I+D D E + A LRL +DDVLDSLKPKESL+IRQR+GLDGKG+R+ EI
Sbjct: 233 LIHSISDPDENEAQYYNAGAQLRLGMDDVLDSLKPKESLIIRQRYGLDGKGERSFTEIGR 292
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
NLN+SREMVRK+E++G+MKLKHPTRV YLR+ ++
Sbjct: 293 NLNLSREMVRKYEIRGMMKLKHPTRVKYLREFLL 326
>gi|302792318|ref|XP_002977925.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii]
gi|300154628|gb|EFJ21263.1| hypothetical protein SELMODRAFT_53596 [Selaginella moellendorffii]
Length = 326
Score = 281 bits (719), Expect = 5e-73, Method: Compositional matrix adjust.
Identities = 150/334 (44%), Positives = 222/334 (66%), Gaps = 10/334 (2%)
Query: 187 EKIEKLVREYSYSTDLVSLDWKKMKIPPV-LSSTEHTWLFKLMQPMKVFVQVKEQLQKDL 245
++ E L++EY S ++ L+W K+ P + L+ E L M P K QV+ + + L
Sbjct: 1 QEAEVLIKEYGASGSMLVLNWDKL--PRLRLTGPEEVRLAWFMAPAKRLQQVRLKFFEHL 58
Query: 246 GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
REP++ E A+ MS +++ L++G+AARNK+IKHNLRLV +KYF++ +
Sbjct: 59 KREPSEEEWAKVAEMSVQTLRRLLQLGQAARNKMIKHNLRLVAHQARKYFKEELSLSL-L 117
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT-VSSFTRVPFGLESTSIM 364
DLCQ GV GL++A+D+F+PK+ +R STY ++W++++I+R+ T + RVP+ + + +
Sbjct: 118 DLCQEGVPGLMSAVDKFDPKKGYRFSTYAVYWVKNSILRAQTRLGHIVRVPYNVAAQKMT 177
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
IQR + +L EL R PT EE+I + + RY EV++ P SL++R VT EE
Sbjct: 178 -----IQRKRAQLSLELDREPTHEEVITELKMDSRRYFEVLRTGAPRRSLNARSKVTGEE 232
Query: 425 FINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
I+ I+D D E + A LRL +DDVLDSLKPKESL+IRQR+GLDGKG+R+ EI
Sbjct: 233 LIHSISDPDENEAQYFNAGAQLRLGMDDVLDSLKPKESLIIRQRYGLDGKGERSFTEIGR 292
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
NLN+SREMVRK+E++G+MKLKHPTRV YLR+ ++
Sbjct: 293 NLNLSREMVRKYEIRGMMKLKHPTRVKYLREFLL 326
>gi|168029696|ref|XP_001767361.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens]
gi|56603661|dbj|BAD80742.1| plastid sigma factor PpSIG5 [Physcomitrella patens]
gi|162681425|gb|EDQ67852.1| plastid sigma factor SIG5 [Physcomitrella patens subsp. patens]
Length = 632
Score = 273 bits (697), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 150/374 (40%), Positives = 237/374 (63%), Gaps = 18/374 (4%)
Query: 155 KRLSLDKRIELRKNEDEKVVTK-------TRKTDSKDE---HEKIEKLVREYSYSTDLVS 204
+RLSL RI +++N+ E V + + D +D+ ++ E+L+ +Y+ S DL +
Sbjct: 265 RRLSLRSRIAMKQNKLEASVVEKPGPTVDSWNMDPEDQLLWSQEAEELINKYTTSMDLAA 324
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
W K+ +L++ E L M+PMK ++++ L K LGR+PTD E A A +
Sbjct: 325 PLWDKLD-RGLLTAVEENRLAVFMKPMKKLEKLQKVLMKQLGRDPTDEEWAAAAGVDLLI 383
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ L +GRAAR KLI+ NLRLVL KY +D + QDLCQ GV GL+ A+D+F+P
Sbjct: 384 MRRRLALGRAARTKLIQRNLRLVLSQAYKYHKD-SMSLSIQDLCQEGVIGLMQAVDKFDP 442
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+ +R STYG++WIR++I+R+ T S R P + + + IQRAK+EL EL R
Sbjct: 443 GKGYRFSTYGIYWIRNSILRAQTKSGHMLRSPHNVSTHRV-----NIQRAKVELFSELGR 497
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT++EI + + I+ +R+R++++ + SLH +T E + + + +
Sbjct: 498 QPTNDEIRKHLGITADRFRDILRTNMRTSSLHEHDRITGREKVENLVSEEDALDTLAGGT 557
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
++++ LDDVLDSL+PKE+LV+RQRFGLDGKG R+L E+ LN+SREMVR++E++G++K
Sbjct: 558 SMVQYGLDDVLDSLRPKENLVLRQRFGLDGKGQRSLSEVGLILNLSREMVRRYELRGILK 617
Query: 504 LKHPTRVDYLRQHM 517
L+HPTRV+YLR ++
Sbjct: 618 LQHPTRVEYLRNYL 631
>gi|401710286|gb|AFP97668.1| SIG5, partial [Carica papaya]
gi|401710288|gb|AFP97669.1| SIG5, partial [Carica papaya]
gi|401710290|gb|AFP97670.1| SIG5, partial [Carica papaya]
gi|401710292|gb|AFP97671.1| SIG5, partial [Carica papaya]
gi|401710294|gb|AFP97672.1| SIG5, partial [Carica papaya]
gi|401710296|gb|AFP97673.1| SIG5, partial [Carica papaya]
gi|401710298|gb|AFP97674.1| SIG5, partial [Carica papaya]
gi|401710300|gb|AFP97675.1| SIG5, partial [Carica papaya]
gi|401710302|gb|AFP97676.1| SIG5, partial [Carica papaya]
gi|401710304|gb|AFP97677.1| SIG5, partial [Carica papaya]
gi|401710306|gb|AFP97678.1| SIG5, partial [Carica papaya]
gi|401710308|gb|AFP97679.1| SIG5, partial [Carica papaya]
gi|401710310|gb|AFP97680.1| SIG5, partial [Carica papaya]
gi|401710312|gb|AFP97681.1| SIG5, partial [Carica papaya]
gi|401710314|gb|AFP97682.1| SIG5, partial [Carica papaya]
gi|401710316|gb|AFP97683.1| SIG5, partial [Carica papaya]
gi|401710318|gb|AFP97684.1| SIG5, partial [Carica papaya]
gi|401710320|gb|AFP97685.1| SIG5, partial [Carica papaya]
gi|401710322|gb|AFP97686.1| SIG5, partial [Carica papaya]
gi|401710324|gb|AFP97687.1| SIG5, partial [Carica papaya]
gi|401710326|gb|AFP97688.1| SIG5, partial [Carica papaya]
gi|401710328|gb|AFP97689.1| SIG5, partial [Carica papaya]
gi|401710330|gb|AFP97690.1| SIG5, partial [Carica papaya]
gi|401710332|gb|AFP97691.1| SIG5, partial [Carica papaya]
gi|401710334|gb|AFP97692.1| SIG5, partial [Carica papaya]
gi|401710336|gb|AFP97693.1| SIG5, partial [Carica papaya]
gi|401710338|gb|AFP97694.1| SIG5, partial [Carica papaya]
gi|401710340|gb|AFP97695.1| SIG5, partial [Carica papaya]
gi|401710342|gb|AFP97696.1| SIG5, partial [Carica papaya]
gi|401710344|gb|AFP97697.1| SIG5, partial [Carica papaya]
gi|401710346|gb|AFP97698.1| SIG5, partial [Carica papaya]
gi|401710348|gb|AFP97699.1| SIG5, partial [Carica papaya]
gi|401710350|gb|AFP97700.1| SIG5, partial [Carica papaya]
gi|401710352|gb|AFP97701.1| SIG5, partial [Carica papaya]
gi|401710354|gb|AFP97702.1| SIG5, partial [Carica papaya]
gi|401710356|gb|AFP97703.1| SIG5, partial [Carica papaya]
gi|401710358|gb|AFP97704.1| SIG5, partial [Carica papaya]
gi|401710360|gb|AFP97705.1| SIG5, partial [Carica papaya]
gi|401710362|gb|AFP97706.1| SIG5, partial [Carica papaya]
gi|401710364|gb|AFP97707.1| SIG5, partial [Carica papaya]
gi|401710366|gb|AFP97708.1| SIG5, partial [Carica papaya]
gi|401710368|gb|AFP97709.1| SIG5, partial [Carica papaya]
gi|401710370|gb|AFP97710.1| SIG5, partial [Carica papaya]
gi|401710372|gb|AFP97711.1| SIG5, partial [Carica papaya]
gi|401710374|gb|AFP97712.1| SIG5, partial [Carica papaya]
gi|401710376|gb|AFP97713.1| SIG5, partial [Carica papaya]
gi|401710378|gb|AFP97714.1| SIG5, partial [Carica papaya]
gi|401710380|gb|AFP97715.1| SIG5, partial [Carica papaya]
gi|401710382|gb|AFP97716.1| SIG5, partial [Carica papaya]
gi|401710384|gb|AFP97717.1| SIG5, partial [Carica papaya]
gi|401710386|gb|AFP97718.1| SIG5, partial [Carica papaya]
gi|401710388|gb|AFP97719.1| SIG5, partial [Carica papaya]
gi|401710390|gb|AFP97720.1| SIG5, partial [Carica papaya]
gi|401710392|gb|AFP97721.1| SIG5, partial [Carica papaya]
gi|401710394|gb|AFP97722.1| SIG5, partial [Carica papaya]
gi|401710396|gb|AFP97723.1| SIG5, partial [Carica papaya]
gi|401710398|gb|AFP97724.1| SIG5, partial [Carica papaya]
gi|401710400|gb|AFP97725.1| SIG5, partial [Carica papaya]
gi|401710402|gb|AFP97726.1| SIG5, partial [Carica papaya]
gi|401710404|gb|AFP97727.1| SIG5, partial [Carica papaya]
gi|401710406|gb|AFP97728.1| SIG5, partial [Carica papaya]
gi|401710408|gb|AFP97729.1| SIG5, partial [Carica papaya]
gi|401710410|gb|AFP97730.1| SIG5, partial [Carica papaya]
gi|401710412|gb|AFP97731.1| SIG5, partial [Carica papaya]
gi|401710414|gb|AFP97732.1| SIG5, partial [Carica papaya]
gi|401710416|gb|AFP97733.1| SIG5, partial [Carica papaya]
gi|401710418|gb|AFP97734.1| SIG5, partial [Carica papaya]
gi|401710420|gb|AFP97735.1| SIG5, partial [Carica papaya]
gi|401710422|gb|AFP97736.1| SIG5, partial [Carica papaya]
gi|401710424|gb|AFP97737.1| SIG5, partial [Carica papaya]
gi|401710426|gb|AFP97738.1| SIG5, partial [Carica papaya]
gi|401710428|gb|AFP97739.1| SIG5, partial [Carica papaya]
gi|401710430|gb|AFP97740.1| SIG5, partial [Carica papaya]
gi|401710432|gb|AFP97741.1| SIG5, partial [Carica papaya]
gi|401710434|gb|AFP97742.1| SIG5, partial [Carica papaya]
gi|401710436|gb|AFP97743.1| SIG5, partial [Carica papaya]
gi|401710438|gb|AFP97744.1| SIG5, partial [Carica papaya]
gi|401710440|gb|AFP97745.1| SIG5, partial [Carica papaya]
gi|401710442|gb|AFP97746.1| SIG5, partial [Carica papaya]
gi|401710444|gb|AFP97747.1| SIG5, partial [Carica papaya]
gi|401710446|gb|AFP97748.1| SIG5, partial [Carica papaya]
gi|401710450|gb|AFP97750.1| SIG5, partial [Carica papaya]
gi|401710452|gb|AFP97751.1| SIG5, partial [Carica papaya]
gi|401710454|gb|AFP97752.1| SIG5, partial [Carica papaya]
gi|401710456|gb|AFP97753.1| SIG5, partial [Carica papaya]
gi|401710458|gb|AFP97754.1| SIG5, partial [Carica papaya]
gi|401710460|gb|AFP97755.1| SIG5, partial [Carica papaya]
gi|401710462|gb|AFP97756.1| SIG5, partial [Carica papaya]
gi|401710464|gb|AFP97757.1| SIG5, partial [Carica papaya]
gi|401710466|gb|AFP97758.1| SIG5, partial [Carica papaya]
gi|401710468|gb|AFP97759.1| SIG5, partial [Carica papaya]
gi|401710470|gb|AFP97760.1| SIG5, partial [Carica papaya]
gi|401710472|gb|AFP97761.1| SIG5, partial [Carica papaya]
gi|401710474|gb|AFP97762.1| SIG5, partial [Carica papaya]
gi|401710476|gb|AFP97763.1| SIG5, partial [Carica papaya]
gi|401710478|gb|AFP97764.1| SIG5, partial [Carica papaya]
gi|401710480|gb|AFP97765.1| SIG5, partial [Carica papaya]
gi|401710482|gb|AFP97766.1| SIG5, partial [Carica papaya]
gi|401710484|gb|AFP97767.1| SIG5, partial [Carica papaya]
gi|401710486|gb|AFP97768.1| SIG5, partial [Carica papaya]
gi|401710488|gb|AFP97769.1| SIG5, partial [Carica papaya]
gi|401710490|gb|AFP97770.1| SIG5, partial [Carica papaya]
gi|401710492|gb|AFP97771.1| SIG5, partial [Carica papaya]
gi|401710494|gb|AFP97772.1| SIG5, partial [Carica papaya]
gi|401710496|gb|AFP97773.1| SIG5, partial [Carica papaya]
gi|401710498|gb|AFP97774.1| SIG5, partial [Carica papaya]
gi|401710500|gb|AFP97775.1| SIG5, partial [Carica papaya]
gi|401710502|gb|AFP97776.1| SIG5, partial [Carica papaya]
gi|401710504|gb|AFP97777.1| SIG5, partial [Carica papaya]
gi|401710506|gb|AFP97778.1| SIG5, partial [Carica papaya]
gi|401710508|gb|AFP97779.1| SIG5, partial [Carica papaya]
gi|401710510|gb|AFP97780.1| SIG5, partial [Carica papaya]
gi|401710512|gb|AFP97781.1| SIG5, partial [Carica papaya]
gi|401710514|gb|AFP97782.1| SIG5, partial [Carica papaya]
gi|401710516|gb|AFP97783.1| SIG5, partial [Carica papaya]
gi|401710518|gb|AFP97784.1| SIG5, partial [Carica papaya]
gi|401710520|gb|AFP97785.1| SIG5, partial [Carica papaya]
gi|401710522|gb|AFP97786.1| SIG5, partial [Carica papaya]
gi|401710524|gb|AFP97787.1| SIG5, partial [Carica papaya]
Length = 148
Score = 271 bits (693), Expect = 6e-70, Method: Compositional matrix adjust.
Identities = 126/148 (85%), Positives = 136/148 (91%)
Query: 213 PPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVG 272
PPVLSSTEH WLFKLMQPMK +QVKE+L+K+LG EPT+ ELA+ATNM+ QVKK +E+G
Sbjct: 1 PPVLSSTEHAWLFKLMQPMKALLQVKEELEKNLGHEPTEGELAKATNMNIVQVKKQMEIG 60
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
RAARNKLIKHNLRLVLFVI +YFQDFANG RFQDLCQAGVKGLITAIDRFEPKRRFRLST
Sbjct: 61 RAARNKLIKHNLRLVLFVINRYFQDFANGSRFQDLCQAGVKGLITAIDRFEPKRRFRLST 120
Query: 333 YGLFWIRHAIIRSMTVSSFTRVPFGLES 360
Y LFWIRHAIIRSMTVSSFTRV FGLES
Sbjct: 121 YSLFWIRHAIIRSMTVSSFTRVSFGLES 148
>gi|15010718|gb|AAK74018.1| AT5g24120/MLE8_4 [Arabidopsis thaliana]
Length = 281
Score = 271 bits (692), Expect = 7e-70, Method: Compositional matrix adjust.
Identities = 159/289 (55%), Positives = 203/289 (70%), Gaps = 20/289 (6%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALF-SPQEQIPLPIET 57
MGVV+ISSS ARSP+GL ++HRS+ K+P IVAFKAD S+N AL P+EQ+ +P E
Sbjct: 1 MGVVSISSSAARSPLGLGNDLLTHRSSLKKPSIVAFKADDSSNSALIIPPREQVLIPAE- 59
Query: 58 PKRHQKRRENSRKRLERVK----GVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTT-S 112
K ++K+RE +R++ + + + A C+L VDYNEAAA+LE+IYKLSPA TT
Sbjct: 60 -KHNEKKREVTRRKPCKTPKKPLSLEHNSAPSCSLGVDYNEAAARLESIYKLSPATTTLV 118
Query: 113 EVKYADGVVK-RGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDE 171
E DG K + +RRKR E+K K VVRN VK+ KR+SLDKRI L++N E
Sbjct: 119 EDDVEDGGSKAKVSRRRKRKESGEEK------KVVVRNNVKKEKRMSLDKRIALKRNVQE 172
Query: 172 KVVTKT---RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLM 228
K V + + T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVLSSTEH WLFKLM
Sbjct: 173 KPVVASVDKKVTKRQQEEEKIERLVRDYSASNDIVSLDWKKMKIPPVLSSTEHAWLFKLM 232
Query: 229 QPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARN 277
QPMK ++VK+ LQK LGREP + E+A NM+A +VKK +E+GRAARN
Sbjct: 233 QPMKALLEVKDVLQKSLGREPREAEIAGEINMTAGEVKKKIEIGRAARN 281
>gi|401710448|gb|AFP97749.1| SIG5, partial [Carica papaya]
Length = 148
Score = 269 bits (688), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 125/148 (84%), Positives = 135/148 (91%)
Query: 213 PPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVG 272
PPVLSSTEH WLFKLMQPMK +QVKE+L+K+LG EPT+ ELA+ATNM+ QVKK +E+G
Sbjct: 1 PPVLSSTEHAWLFKLMQPMKALLQVKEELEKNLGHEPTEGELAKATNMNIVQVKKQMEIG 60
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
RAARNKLIKHNLRLVLFVI +YFQDF NG RFQDLCQAGVKGLITAIDRFEPKRRFRLST
Sbjct: 61 RAARNKLIKHNLRLVLFVINRYFQDFTNGSRFQDLCQAGVKGLITAIDRFEPKRRFRLST 120
Query: 333 YGLFWIRHAIIRSMTVSSFTRVPFGLES 360
Y LFWIRHAIIRSMTVSSFTRV FGLES
Sbjct: 121 YSLFWIRHAIIRSMTVSSFTRVSFGLES 148
>gi|62320238|dbj|BAD94495.1| sigma-like factor [Arabidopsis thaliana]
Length = 269
Score = 253 bits (645), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 150/277 (54%), Positives = 192/277 (69%), Gaps = 20/277 (7%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALF-SPQEQIPLPIET 57
MGVV+ISSS ARSP+GL ++HRS+ K+P IVAFKAD S+N AL P+EQ+ +P E
Sbjct: 1 MGVVSISSSAARSPLGLGNDLLTHRSSLKKPSIVAFKADDSSNSALIIPPREQVLIPAE- 59
Query: 58 PKRHQKRRENSRKRLERVK----GVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTT-S 112
K ++K+RE +R++ + + + A C+L VDYNEAAA+LE+IYKLSPA TT
Sbjct: 60 -KHNEKKREVTRRKPCKTPKKPLSLEHNSAPSCSLGVDYNEAAARLESIYKLSPATTTLV 118
Query: 113 EVKYADGVVK-RGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDE 171
E DG K + +RRKR E+K K VVRN VK+ KR+SLDKRI L++N E
Sbjct: 119 EDDVEDGGSKAKVSRRRKRKESGEEK------KVVVRNNVKKEKRMSLDKRIALKRNVQE 172
Query: 172 KVVTKT---RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLM 228
K V + + T + E EKIE+LVR+YS S D+VSLDWKKMKIPPVLSSTEH WLFKLM
Sbjct: 173 KPVVASVDKKVTKRQQEEEKIERLVRDYSASNDIVSLDWKKMKIPPVLSSTEHAWLFKLM 232
Query: 229 QPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
QPMK ++VK+ LQK LGREP + E+A NM+A +V
Sbjct: 233 QPMKALLEVKDVLQKSLGREPREAEIAGEINMTAGEV 269
>gi|401710526|gb|AFP97788.1| SIG5, partial [Jacaratia dolichaula]
gi|401710528|gb|AFP97789.1| SIG5, partial [Jacaratia dolichaula]
Length = 128
Score = 215 bits (547), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 101/124 (81%), Positives = 110/124 (88%)
Query: 237 VKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQ 296
V E++ K+L +E T+ EL+E TNM VKK +E+GRAARNKLIKHNLRLVLFVI +YFQ
Sbjct: 5 VNERVHKNLVQETTESELSETTNMCVVLVKKRVEIGRAARNKLIKHNLRLVLFVINRYFQ 64
Query: 297 DFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFTRVPF 356
DFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY LFWIRHAIIRSMTVSSFTRV F
Sbjct: 65 DFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYSLFWIRHAIIRSMTVSSFTRVSF 124
Query: 357 GLES 360
GLES
Sbjct: 125 GLES 128
>gi|302774234|ref|XP_002970534.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii]
gi|300162050|gb|EFJ28664.1| hypothetical protein SELMODRAFT_147096 [Selaginella moellendorffii]
Length = 458
Score = 188 bits (477), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 119/333 (35%), Positives = 190/333 (57%), Gaps = 18/333 (5%)
Query: 190 EKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP 249
E+L+R S + +DW+ + L+S E L +L+ P+K QV+ +L++ L REP
Sbjct: 138 EELIRS---SFGVKPVDWRNLH-HRYLTSQEEIELVELLTPVKHLHQVRSELRRVLRREP 193
Query: 250 TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
+D E A N +++ L++G AA+NKLI+HN RLVLF+ ++Y +D A +DLCQ
Sbjct: 194 SDDEWATTANTDFRTLRRRLQLGEAAQNKLIEHNCRLVLFLARRYERD-AGSFSLEDLCQ 252
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT-VSSFTRVPFGLESTSIMQVRG 368
GVKGLI A+D F P + R STY +FWIR AI+R++T R+PF + +
Sbjct: 253 EGVKGLIDAMDHFNPGKGTRFSTYAIFWIRTAIVRAITRTGQVIRLPFSFAAKKV----- 307
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASK-PILSLHSRHGVTQEEFIN 427
EI++A+ EL EL R P+DEE+++ + P ++ + S + SL+ T EEF+
Sbjct: 308 EIRKARRELRVELGRNPSDEEVMERTGLDPVQFWNIYYYSNFRVRSLNETVRGTDEEFLE 367
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGK-GDRTLGEIAGN 485
+ + + +E+ +R + L LK KE +V++ R+GL DG ++L E+
Sbjct: 368 YLPETGDIVSESSE----VREEIVTALQRLKDKERMVLQHRYGLEDGALAVKSLREVGRR 423
Query: 486 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
LN+S+EMVR++E L +L+H LR +
Sbjct: 424 LNMSQEMVRRYEASALERLRHQEEAKSLRSCLA 456
>gi|302793696|ref|XP_002978613.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii]
gi|300153962|gb|EFJ20599.1| hypothetical protein SELMODRAFT_177039 [Selaginella moellendorffii]
Length = 458
Score = 187 bits (475), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 119/333 (35%), Positives = 190/333 (57%), Gaps = 18/333 (5%)
Query: 190 EKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP 249
E+L+R S + +DW + L+S E L +L+ P+K QV+ +L++ L REP
Sbjct: 138 EELIRS---SFGVKPVDWGNLH-HRYLTSQEEIELVELLTPVKHLHQVRSELRRVLRREP 193
Query: 250 TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
+D E A A N +++ L++G AA+NKLI+HN RLVLF+ ++Y +D A +DLCQ
Sbjct: 194 SDDEWATAANTDFRTLRRRLQLGEAAQNKLIEHNCRLVLFLARRYERD-AGSFSLEDLCQ 252
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT-VSSFTRVPFGLESTSIMQVRG 368
GVKGLI A+D F P + R STY +FWIR A++R++T R+PF + +
Sbjct: 253 EGVKGLIDAMDHFNPGKGTRFSTYAIFWIRTAMVRAITRTGQVIRLPFSFAAKKV----- 307
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASK-PILSLHSRHGVTQEEFIN 427
EI++A+ EL EL R P+DEE+++ + P ++ + S + SL+ T EEF+
Sbjct: 308 EIRKARRELRVELGRNPSDEEVMERTGLDPVQFWNIYYYSNFRVRSLNETVRGTDEEFLE 367
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGK-GDRTLGEIAGN 485
+ + + +E+ +R + L LK KE +V++ R+GL DG ++L E+
Sbjct: 368 YLPETGDIVSESSE----VREEIVTALQRLKDKERMVLQHRYGLEDGAIAVKSLREVGRR 423
Query: 486 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
LN+S+EMVR++E L +L+H LR +
Sbjct: 424 LNMSQEMVRRYEASALERLRHQEEAKSLRSCLA 456
>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 = 179 bits (454), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 116/347 (33%), Positives = 196/347 (56%), Gaps = 16/347 (4%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
K VT T++ +SK++ +K SY+ D + L +++ +L + E L + + +
Sbjct: 61 KAVTATKEENSKEDSKK-------KSYTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 113
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
+ + +L+ +G EPTD E AE +M + ++ L +GR A+ K+++ NLRLV+ +
Sbjct: 114 LELERKRTELEATIGCEPTDEEWAEEVDMPLQKFRRRLMLGRRAKEKMVQSNLRLVVSIA 173
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 174 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 230
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L EL R PT+EEI + + ++ E+ R + K+++
Sbjct: 231 TIRLPVHLYETI-----SRIKKTTKLLSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQL 285
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E++ +LLR L+DVLD+L P+E V+R R+G
Sbjct: 286 PISLETPIGKEEDSRLGDFIEADGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYG 345
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L+ +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 346 LEDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 392
>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 = 177 bits (448), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 113/321 (35%), Positives = 181/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V+E+L + L REP D E AEA
Sbjct: 77 YTEDSIRLYLQEIGRIRLLRADEEIELARKIAELLEMERVRERLLEQLDREPQDSEWAEA 136
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+S + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 137 VQLSLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 193
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 194 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 248
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 249 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 308
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 309 PEDQVSKSLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 368
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 369 EAKALRKLRHPNRNSVLKEYI 389
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 121/364 (33%), Positives = 197/364 (54%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 46 MDEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 94
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+E+L + L R+P D E AEA + + L VGR
Sbjct: 95 LLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQLPLPAFRYRLHVGRR 154
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 155 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 211
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 212 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 266
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 267 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 326
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 327 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 386
Query: 514 RQHM 517
++++
Sbjct: 387 KEYI 390
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E L L REP D E A+A
Sbjct: 74 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREHLCDHLHREPYDAEWADA 133
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
MS Q + L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 134 VKMSVGQFRHRLHCGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 190
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 191 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 245
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 246 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 305
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 306 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 365
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 366 EAKALRKLRHPNRNSILKEYI 386
>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 = 176 bits (447), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 121/364 (33%), Positives = 197/364 (54%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+E+L + L R+P D E AEA + + L VGR
Sbjct: 94 LLRADEEIELARKIADLLELERVREKLSEQLDRDPKDSEWAEAVQLPLPAFRYRLHVGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 265
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 266 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 325
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 326 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 385
Query: 514 RQHM 517
++++
Sbjct: 386 KEYI 389
>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 = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 116/347 (33%), Positives = 189/347 (54%), Gaps = 20/347 (5%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
KV R+T +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 54 KVRPGRRRTQAKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 102
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
+++E LQ+ L R P D E A A NM+ + L +GR A++K+++ NLRLV+ +
Sbjct: 103 LELERIRESLQQQLDRTPQDAEWANAVNMTLPAFRHRLHLGRRAKDKMVQSNLRLVVSIA 162
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 163 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 219
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 220 TIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQL 274
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E+Q LLR L++VLD+L P+E V+R R+G
Sbjct: 275 PISLETPIGKEEDSRLGDFIESDGETPEDQVAKNLLREDLENVLDTLSPRERDVLRLRYG 334
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 335 LDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 381
>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 = 176 bits (446), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 121/363 (33%), Positives = 196/363 (53%), Gaps = 24/363 (6%)
Query: 160 DKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPV 215
D+ +E + +ED+ K R+T SK +H Y+ D + L +++ +
Sbjct: 45 DEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIRL 93
Query: 216 LSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAA 275
L + E L + + + +V+E+L + L R+P D E AEA + + L VGR A
Sbjct: 94 LRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQLPLPAFRYRLHVGRRA 153
Query: 276 RNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGL 335
++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 KDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYAT 210
Query: 336 FWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGV 394
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI +
Sbjct: 211 WWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRM 265
Query: 395 NISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVL 454
++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ VL
Sbjct: 266 EMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKVL 325
Query: 455 DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLR 514
DSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L+
Sbjct: 326 DSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLK 385
Query: 515 QHM 517
+++
Sbjct: 386 EYI 388
>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 = 174 bits (442), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 119/363 (32%), Positives = 197/363 (54%), Gaps = 24/363 (6%)
Query: 160 DKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPV 215
D+ I+ + +ED+ K V R+ +K +H Y+ D + L +++ +
Sbjct: 45 DEFIDSQSDEDDTKPGKGVKSRRRAQAKKKH-----------YTEDSIRLYLQEIGRIRL 93
Query: 216 LSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAA 275
L + E L + + + +++E+L + L R+P D E AEA + Q + L +GR A
Sbjct: 94 LRADEEIELARKIADLLELERIREKLSQQLDRDPKDSEWAEAVQVPLPQFRYRLHIGRRA 153
Query: 276 RNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGL 335
++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 KDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYAT 210
Query: 336 FWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGV 394
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI +
Sbjct: 211 WWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRM 265
Query: 395 NISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVL 454
++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ VL
Sbjct: 266 EMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKVL 325
Query: 455 DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLR 514
DSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L+
Sbjct: 326 DSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLK 385
Query: 515 QHM 517
+++
Sbjct: 386 EYI 388
>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 = 174 bits (442), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 179/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V+EQL ++ REP D E A A
Sbjct: 75 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREQLLEEYNREPKDSEWANA 134
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M+ + L VGR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 135 VDMALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 191
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 192 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 246
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 247 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 306
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 307 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 366
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 367 EAKALRKLRHPNRNSILKEYI 387
>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 = 174 bits (442), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 120/364 (32%), Positives = 197/364 (54%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDEFLEPQTDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+E+L + L R+P D E AEA + + L +GR
Sbjct: 94 LLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 265
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 266 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 325
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 326 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 385
Query: 514 RQHM 517
++++
Sbjct: 386 KEYI 389
>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 = 174 bits (441), Expect = 9e-41, Method: Compositional matrix adjust.
Identities = 123/368 (33%), Positives = 197/368 (53%), Gaps = 26/368 (7%)
Query: 157 LSLDKRIELRKNEDE------KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKM 210
L LD++ EL +++ E KVV R+ +K +H Y+ D + L +++
Sbjct: 37 LDLDEQDELIESQPEEEVKAGKVVKSRRRAQTKKKH-----------YTEDSIRLYLQEI 85
Query: 211 KIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLE 270
+L + E L + + + +V+EQL L R+P D E AEA + + L
Sbjct: 86 GRIRLLRADEEIELARKIAELLQMERVREQLCDRLDRDPHDSEWAEAVELPINSFRYRLH 145
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++
Sbjct: 146 VGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKF 202
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI R++ S T R+P L T I++ L E+ R PT+EE
Sbjct: 203 STYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEE 257
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLA 449
I + ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR
Sbjct: 258 IATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLRED 317
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ VLD L P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R
Sbjct: 318 LEKVLDGLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 377
Query: 510 VDYLRQHM 517
L++++
Sbjct: 378 NSVLKEYI 385
>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 = 1e-40, Method: Compositional matrix adjust.
Identities = 112/321 (34%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V+++LQ+ L REP E AEA
Sbjct: 80 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQQQLEREPQYSEWAEA 139
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ Q + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 140 VQLPLPQFRHRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 196
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 197 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 251
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 252 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 311
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 312 PEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 371
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 372 EAKALRKLRHPNRNSVLKEYI 392
>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 = 174 bits (440), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 184/321 (57%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + +++E++ + +GR PTD+E ++A
Sbjct: 66 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIREKMTEHMGRFPTDLEWSQA 125
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
NM ++ L +GR A++K++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 126 INMEWHAFQRRLYLGRKAKDKMVHSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 182
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 183 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 237
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E++R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 238 LSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGEN 297
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 298 PEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 357
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 358 EAKALRKLRHPNRNSILKEYI 378
>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 = 174 bits (440), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V+EQL ++ REP D E A A
Sbjct: 75 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREQLLEEYNREPKDSEWANA 134
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M+ + L VGR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 135 VEMALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 191
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 192 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 246
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 247 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 306
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 307 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 366
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 367 EAKALRKLRHPNRNSILKEYI 387
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 119/364 (32%), Positives = 197/364 (54%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +++E+L + L R+P D E AEA + + L +GR
Sbjct: 94 LLRADEEIELARKIADLLELERIRERLSEQLERDPHDSEWAEAVQLPLPAFRYRLHLGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 265
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 266 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 325
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 326 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 385
Query: 514 RQHM 517
++++
Sbjct: 386 KEYI 389
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 182/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + ++ EQL+K LGR P + E AEA
Sbjct: 61 YTEDSIRVYLQEIGRIRLLRAEEEIELARKIADLLELERIYEQLRKRLGRFPNNREWAEA 120
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 121 VEMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 177
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 178 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 232
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E++R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 233 LSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 292
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 293 PEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 352
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 353 EAKALRKLRHPNRNSILKEYI 373
>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 = 173 bits (439), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 114/345 (33%), Positives = 188/345 (54%), Gaps = 19/345 (5%)
Query: 174 VTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKV 233
VT TR+ D+ + E +R Y + L L + E L + + +
Sbjct: 49 VTATRRRDAGKKKPYTEDSIRIYLQEIGRIRL----------LRAEEEIELARKIADLLE 98
Query: 234 FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKK 293
+++E+L++ LGR P+D E AE M ++ L +GR A++K+++ NLRLV+ + KK
Sbjct: 99 LERLREKLRRSLGRYPSDKEWAEQVGMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKK 158
Query: 294 YFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT- 352
Y G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T
Sbjct: 159 YMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTI 215
Query: 353 RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPIL 412
R+P L T I++ L E++R PT+EEI + ++ E+ R + K+++ +
Sbjct: 216 RLPVHLYETI-----SRIKKTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPI 270
Query: 413 SLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
SL + G ++ + + DG E++ LLR L++VLD+L P+E V+R R+GLD
Sbjct: 271 SLETPIGKEEDSRLGDFIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLD 330
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 331 DGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 375
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V EQL+ L REP D E A A
Sbjct: 70 YTEDSIRLYLQEIGRIRLLRADEEIELARKIAELLQLERVYEQLKAQLDREPKDSEWALA 129
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M Q + L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 130 VEMPLPQFRHRLYLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 186
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 187 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 241
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 242 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 301
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 302 PEDEVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 361
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 362 EAKALRKLRHPNRNSILKEYI 382
>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 = 173 bits (438), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 120/363 (33%), Positives = 196/363 (53%), Gaps = 24/363 (6%)
Query: 160 DKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPV 215
D+ +E + +ED+ K R+T SK +H Y+ D + L +++ +
Sbjct: 47 DEFLEPQSDEDDTKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIRL 95
Query: 216 LSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAA 275
L + E L + + + +V+++LQ+ L REP E AEA + + L +GR A
Sbjct: 96 LRADEEIELARKIADLLELERVRDRLQEQLEREPEYREWAEAVQIPLPAFRYRLHIGRRA 155
Query: 276 RNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGL 335
++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 156 KDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYAT 212
Query: 336 FWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGV 394
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI +
Sbjct: 213 WWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRM 267
Query: 395 NISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVL 454
++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ VL
Sbjct: 268 EMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKVL 327
Query: 455 DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLR 514
DSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L+
Sbjct: 328 DSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLK 387
Query: 515 QHM 517
+++
Sbjct: 388 EYI 390
>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 = 172 bits (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 110/321 (34%), Positives = 181/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + +++EQL++ R PTD E AEA
Sbjct: 66 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLEEHESRVPTDKEWAEA 125
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 126 AGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 182
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 183 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 237
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L EL R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 238 LSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 297
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 298 PEDQVSKSLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 357
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 358 EAKALRKLRHPNRNSILKEYI 378
>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 (437), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E+L L REP D E AEA
Sbjct: 79 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSDRLDREPQDSEWAEA 138
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 139 VKQNLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 195
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 196 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 250
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 251 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 310
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 311 PEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 370
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 371 EAKALRKLRHPNRNSVLKEYI 391
>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 = 172 bits (436), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 184/321 (57%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + +++E+L+++LGR P+D E A+
Sbjct: 64 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRNLGRYPSDKEWAQQ 123
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 124 VGMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 180
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 181 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 235
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E++R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 236 LSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 295
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 296 PEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 355
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 356 EAKALRKLRHPNRNSILKEYI 376
>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 (435), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 115/341 (33%), Positives = 184/341 (53%), Gaps = 20/341 (5%)
Query: 178 RKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQV 237
R+T SK +H Y+ D + L +++ +L + E L + + + +V
Sbjct: 51 RRTQSKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERV 99
Query: 238 KEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
+E+L + L REP D E A +M + L VGR A+ K+++ NLRLV+ + KKY
Sbjct: 100 RERLSEQLEREPGDREWATEVDMELPAFRYRLHVGRRAKEKMVQSNLRLVVSIAKKYMN- 158
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPF 356
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P
Sbjct: 159 --RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV 216
Query: 357 GLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHS 416
L T I++ L E+ R PT+EEI + ++ E+ R + K+++ +SL +
Sbjct: 217 HLYETI-----SRIKKTTKLLSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLET 271
Query: 417 RHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
G ++ + + DG E+Q LLR L+ VLD+L P+E V+R R+GLD
Sbjct: 272 PIGKEEDSRLGDFIEADGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRM 331
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 332 KTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 372
>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 = 108/325 (33%), Positives = 183/325 (56%), Gaps = 9/325 (2%)
Query: 194 REYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE 253
R+ Y+ D + + +++ +L + E L + + + +++E++ L R P+D E
Sbjct: 55 RKKPYTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERMADRLERYPSDAE 114
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
AE NM + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G
Sbjct: 115 WAEEVNMRLPEFRRRLFYGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSL 171
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 172 GLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKK 226
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + +
Sbjct: 227 TTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEA 286
Query: 433 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
DG E+Q +LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE
Sbjct: 287 DGETPEDQVSKSLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 346
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP R L++++
Sbjct: 347 IRQIEAKALRKLRHPNRNSILKEYI 371
>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 = 171 bits (434), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 114/347 (32%), Positives = 187/347 (53%), Gaps = 20/347 (5%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
KV R+ +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 63 KVAKARRRAQAKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 111
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
+++EQL ++L R+P D E A A M + L +GR A++K+++ NLRLV+ +
Sbjct: 112 LELERIREQLCEELERDPKDNEWANAVGMPLPAFRHRLHLGRRAKDKMVQSNLRLVVSIA 171
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 172 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 228
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 229 TIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQL 283
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E+Q LLR L+ VLD+L P+E V+R R+G
Sbjct: 284 PISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYG 343
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 344 LDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 390
>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 = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 120/364 (32%), Positives = 195/364 (53%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDDFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+++L + L REP E AEA + + L VGR
Sbjct: 94 LLRADEEIELARKIADLLELERVRDRLYEQLEREPQFKEWAEAVQLPLPTFRYRLHVGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 265
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 266 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 325
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 326 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 385
Query: 514 RQHM 517
++++
Sbjct: 386 KEYI 389
>gi|388522057|gb|AFK49090.1| unknown [Medicago truncatula]
Length = 210
Score = 171 bits (433), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 100/212 (47%), Positives = 139/212 (65%), Gaps = 5/212 (2%)
Query: 1 MGVVTISSSPARSPIGLST--ISHRSTSKRPLIVAFKADKSNNQALFSPQEQIPLPIETP 58
MGVVT+SSS AR+P+GL+ +H KRPL VAFK DK N+ AL + QE+IP ++
Sbjct: 1 MGVVTVSSSAARTPLGLNAKFSTHHPVLKRPLTVAFKGDKQNDTALVATQEKIPTQVKPA 60
Query: 59 KRHQKRRENSRKRLERVKGVFSDEASPCTLDVDYNEAAAKLENIYKLSPAVTTSEVKYAD 118
K H+KR + K ++ + V ++E P +LDVDYNEAAA LENIYKLSP + Y +
Sbjct: 61 KTHKKRIAKTNKLPKKPRAVCTEETFPSSLDVDYNEAAAILENIYKLSPTTDICDADYIE 120
Query: 119 GVVKRGRQRRKRIGEVEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTR 178
+KR +R K+IG+V K +D + V RNQ + KR++LD+RI L+ +E+ + V TR
Sbjct: 121 RKIKRVSRRGKKIGDVSK--EDSNSDRVARNQKTKAKRMNLDERIALKTSENSEDVIPTR 178
Query: 179 KT-DSKDEHEKIEKLVREYSYSTDLVSLDWKK 209
K + + EKI++L+REYS DLVSLD KK
Sbjct: 179 KKRNPRSRVEKIDELLREYSVPADLVSLDRKK 210
>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 = 171 bits (433), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 119/364 (32%), Positives = 195/364 (53%), Gaps = 24/364 (6%)
Query: 159 LDKRIELRKNEDE----KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPP 214
+D+ +E + +ED+ K R+T SK +H Y+ D + L +++
Sbjct: 45 IDEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH-----------YTEDSIRLYLQEIGRIR 93
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L + E L + + + +V+E+L + L R+P D E A + + L VGR
Sbjct: 94 LLRADEEIELARKIADLLELERVRERLSERLERDPKDSEWAAEVQLPLPAFRYRLHVGRR 153
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 154 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E+ R PT+EEI
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATR 265
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E+Q LLR L+ V
Sbjct: 266 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLEKV 325
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LDSL P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 326 LDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 385
Query: 514 RQHM 517
++++
Sbjct: 386 KEYI 389
>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 = 171 bits (432), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 177/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++++L L REP D E A
Sbjct: 60 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLSDQLEREPQDSEWATE 119
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
NM + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 120 VNMPLQAFRHRLYVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 176
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 177 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 231
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 232 LSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 291
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 292 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 351
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 352 EAKALRKLRHPNRNSILKEYI 372
>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 = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 114/348 (32%), Positives = 192/348 (55%), Gaps = 17/348 (4%)
Query: 179 KTDSKDEHEKIEKL--------VREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQP 230
++D +DE K+ K+ ++ ++ D + L +++ +L + E L + +
Sbjct: 40 ESDVEDEDGKLGKVKASRRRVQTKKKQFTEDSIRLYLQEIGRIRLLRADEEIELARKIAD 99
Query: 231 MKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFV 290
+ +++E+L DL REP D E A +M Q + L +GR A++K+++ NLRLV+ +
Sbjct: 100 LLELERMREKLLNDLDREPHDREWAAVASMPLNQFRHRLFLGRRAKDKMVQSNLRLVVSI 159
Query: 291 IKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS 350
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 160 AKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQS 216
Query: 351 FT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASK 409
T R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 217 RTIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQ 271
Query: 410 PILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
+SL + G ++ + + DG E+Q +LLR L+ VLD+L P+E V+R R+
Sbjct: 272 LPISLETPIGKEEDSRLGDFIEADGEMPEDQVSKSLLREDLEGVLDTLSPRERDVLRLRY 331
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
GLD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 332 GLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 379
>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 = 170 bits (431), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 111/321 (34%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +V+++LQ L REP E AEA
Sbjct: 79 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQDQLEREPQFKEWAEA 138
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 139 VELPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 195
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 196 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 250
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 251 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 310
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 311 PEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 370
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 371 EAKALRKLRHPNRNSVLKEYI 391
>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 = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 114/347 (32%), Positives = 188/347 (54%), Gaps = 20/347 (5%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
K R+T +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 61 KAAKGRRRTQAKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 109
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
+V ++L + L R+P + E AEA + + + L VGR A++K+++ NLRLV+ +
Sbjct: 110 LELERVGDRLVQQLERQPQESEWAEAVQLPLQKFRYRLHVGRRAKDKMVQSNLRLVVSIA 169
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 170 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 226
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 227 TIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQL 281
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E+Q +LLR L+ VLDSL P+E V+R R+G
Sbjct: 282 PISLETPIGKEEDSRLGDFIESDGETPEDQVSKSLLREDLEKVLDSLSPRERDVLRLRYG 341
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 342 LDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 388
>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 = 169 bits (429), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + +++EQL + R PTD E AEA
Sbjct: 62 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEA 121
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 122 AGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 178
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 179 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 233
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L EL R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 234 LSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 293
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L++VLD+L +E V+R R+GLD +TL EI N++RE +R+
Sbjct: 294 PEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 353
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 354 EAKALRKLRHPNRNSILKEYI 374
>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 = 169 bits (428), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 112/344 (32%), Positives = 188/344 (54%), Gaps = 20/344 (5%)
Query: 175 TKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVF 234
T R+T +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 47 TSRRRTQTKKKH-----------YTEDSIRLYLQEIGRIRLLRAEEEIELARKIADLLEL 95
Query: 235 VQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
+V +QL + L R+P D E AEA +M + ++ L +GR A++K+++ NLRLV+ + KKY
Sbjct: 96 ERVYDQLAETLQRDPQDAEWAEAVDMPLPKFQRRLHIGRRAKDKMVQSNLRLVVSIAKKY 155
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R
Sbjct: 156 MN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIR 212
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++ +S
Sbjct: 213 LPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPIS 267
Query: 414 LHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDG 473
L + G ++ + + DG E++ +LLR L+ VL +L +E V+R R+GLD
Sbjct: 268 LETPIGKEEDSRLGDFIESDGETPEDEVSKSLLREDLESVLGTLSARERDVLRLRYGLDD 327
Query: 474 KGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 328 GRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 371
>gi|1588486|prf||2208419B RNA polymerase sigma factor
Length = 391
Score = 169 bits (427), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + +++EQL + R PTD E AEA
Sbjct: 78 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEA 137
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 138 AGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 194
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 195 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 249
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L EL R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 250 LSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 309
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L++VLD+L +E V+R R+GLD +TL EI N++RE +R+
Sbjct: 310 PEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 369
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 370 EAKALRKLRHPNRNSILKEYI 390
>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 = 168 bits (426), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 103/283 (36%), Positives = 166/283 (58%), Gaps = 10/283 (3%)
Query: 237 VKEQLQKDLGREPTDVELAEATNM-SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ L + LGR PTD E A A++M + Q + L +GR A++K+++ NLRLV+ + KKY
Sbjct: 111 IRSTLIEHLGRVPTDEEWAIASDMPNMRQFNRRLHIGRKAKDKMVQSNLRLVVSIAKKYM 170
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 171 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 227
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L ++ R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 228 PVHLYETI-----SRIKKTTKMLSQKMGRKPTEEEIAEDMEMTIEKLRFIAKSAQLPISL 282
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + DG E++ LLR L++VLDSL P+E V+R R+GLD
Sbjct: 283 ETPIGKEEDSRLGDFIEADGETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDG 342
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 343 RMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 385
>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 = 6e-39, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++ L + L REPTD E A+
Sbjct: 68 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRADLAEQLEREPTDAEWAQK 127
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M+ + L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 128 VDMALPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 184
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 185 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 239
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 240 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 299
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 300 PEDQVSKNLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 359
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 360 EAKALRKLRHPNRNSVLKEYI 380
>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 = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 112/346 (32%), Positives = 188/346 (54%), Gaps = 20/346 (5%)
Query: 173 VVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMK 232
V R+T +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 64 VAKSRRRTQAKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARRIADLL 112
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIK 292
+++E+L + EP D E A A +M+ + ++ L +GR A++K+++ NLRLV+ + K
Sbjct: 113 ELERIREKLVEHNHCEPEDREWASAVDMALPEFRRRLYLGRRAKDKMVQSNLRLVVSIAK 172
Query: 293 KYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT 352
KY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T
Sbjct: 173 KYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRT 229
Query: 353 -RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPI 411
R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 230 IRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLP 284
Query: 412 LSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL 471
+SL + G ++ + + DG E+Q LLR L+ VLD+L P+E V+R R+GL
Sbjct: 285 ISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGL 344
Query: 472 DGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
D +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 345 DDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 390
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 113/347 (32%), Positives = 187/347 (53%), Gaps = 20/347 (5%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
KV + R+T +K +H Y+ D + L +++ +L + E L + + +
Sbjct: 52 KVRSTRRRTQAKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 100
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
+++++L L REP + E A+ M ++ L +GR A+ K+++ NLRLV+ +
Sbjct: 101 LELERIRDRLYDQLEREPKEGEWAKEVEMELPAFRQRLFLGRRAKEKMVQSNLRLVVSIA 160
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 161 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 217
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L EL R PT+EEI + ++ E+ R + K+++
Sbjct: 218 TIRLPVHLYETI-----SRIKKTTKILSQELGRKPTEEEIADRMEMTIEKLRFIAKSAQL 272
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E+Q LLR L+ VLD+L P+E V+R R+G
Sbjct: 273 PISLETPIGKEEDSRLGDFIEADGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYG 332
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 333 LDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 379
>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 = 167 bits (422), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 121/385 (31%), Positives = 208/385 (54%), Gaps = 17/385 (4%)
Query: 134 VEKKSDDVSGKPVVRNQVKRPKRLSLDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLV 193
+E++S + + V +V+ P L+K L E+ K T +K++ +K
Sbjct: 18 IEEQSHEAAQGNTVALEVE-PADSDLEKEALLEAEPPEEAPQKIEATTTKEDSKK----- 71
Query: 194 REYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE 253
SY+ D + L +++ +L + E L + + + + + +L+ +G EPTD E
Sbjct: 72 --KSYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLSELERTRTELEATIGCEPTDEE 129
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
AE + + ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G
Sbjct: 130 WAEEVGQALPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSL 186
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 187 GLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKK 241
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
L EL R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + +
Sbjct: 242 TTKILSQELARKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEA 301
Query: 433 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
DG E++ +LLR L+DVLD+L P+E V+R R+GL+ +TL EI N++RE
Sbjct: 302 DGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNVTRER 361
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP R L++++
Sbjct: 362 IRQIEAKALRKLRHPNRNSILKEYI 386
>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 = 166 bits (421), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 108/321 (33%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E+L L REP E A A
Sbjct: 73 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREELIYHLDREPQVSEWANA 132
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M + K+ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 133 VDMELPKFKRRLILGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 189
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 190 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 244
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 245 LSQEMGRKPTEEEIATSMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 304
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ LLR L+ VL+SL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 305 PEDEVSKNLLREDLESVLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 364
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 365 EAKALRKLRHPNRNSILKEYI 385
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 105/321 (32%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + ++++++ L EPTD + A A
Sbjct: 91 YTEDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDEIDDQLDDEPTDADWANA 150
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 151 VDMPLPAFRRRLYQGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 207
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 208 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 262
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L EL R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 263 LSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 322
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ +LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 323 PEDEVSKSLLREDLESVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 382
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 383 EAKALRKLRHPNRNSVLKEYI 403
>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 = 166 bits (420), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D + L +++ +L + E L + + + +V++ L + L REP E AEA
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 193
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 194 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 248
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 249 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 308
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 309 PEDQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERIRQI 368
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 369 EAKALRKLRHPNRNSVLKEYI 389
>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 = 166 bits (419), Expect = 4e-38, Method: Compositional matrix adjust.
Identities = 109/321 (33%), Positives = 178/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D + L +++ +L + E L + + + +V++ L + L REP E AEA
Sbjct: 77 FTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEA 136
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 137 VKLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 193
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 194 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 248
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 249 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 308
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q +LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 309 PEDQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 368
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 369 EAKALRKLRHPNRNSVLKEYI 389
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 176/321 (54%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++EQL L REP D E A
Sbjct: 65 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLYDKLDREPQDQEWAGE 124
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M + L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 125 VDMPLQSFRHRLHIGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 181
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 182 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 236
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 237 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 296
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VL +L P+E V++ R+GLD +TL EI N++RE +R+
Sbjct: 297 PEDQVSKNLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQI 356
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 357 EAKALRKLRHPNRNSVLKEYI 377
>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 = 165 bits (417), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 108/321 (33%), Positives = 177/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + + +E+L + L R+P D E A
Sbjct: 78 YTEDSIRLYLQEIGRIRLLRADEEIELARKIAELLELERARERLCERLERDPRDSEWAAE 137
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
++ + L VGR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 138 VSLPLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 194
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 195 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 249
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 250 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 309
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLDSL P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 310 PEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 369
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 370 EAKALRKLRHPNRNSVLKEYI 390
>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 = 164 bits (416), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 101/275 (36%), Positives = 161/275 (58%), Gaps = 10/275 (3%)
Query: 245 LGREPTDVELAEATNM-SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPR 303
LGR PTD E A A ++ + Q + L +GR A++K+++ NLRLV+ + KKY G
Sbjct: 124 LGRIPTDEEWAIACDIPNMRQFNRRLHIGRRAKDKMVQSNLRLVVSIAKKYMN---RGLS 180
Query: 304 FQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTS 362
FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T
Sbjct: 181 FQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI 240
Query: 363 IMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ 422
I++ L ++ R PT+EEI + + ++ E+ R + K+++ +SL + G +
Sbjct: 241 -----SRIKKTTKMLSQKMGRKPTEEEIAEDMEMTIEKLRFIAKSAQLPISLETPIGKEE 295
Query: 423 EEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 482
+ + + DG E++ LLR L++VLDSL P+E V+R R+GLD +TL EI
Sbjct: 296 DSRLGDFIEADGETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEI 355
Query: 483 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
N++RE +R+ E K L KL+HP R L++++
Sbjct: 356 GQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 390
>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 = 162 bits (411), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 112/354 (31%), Positives = 194/354 (54%), Gaps = 23/354 (6%)
Query: 179 KTDSKDEHEKIEKLV--------------REYSYSTDLVSLDWKKMKIPPVLSSTEHTWL 224
++ KD EKI KL R+ Y+ D + + +++ +L + E L
Sbjct: 34 ESSKKDSSEKIAKLASKLASTPRRTAERGRKKPYTEDSIRIYLQEIGRIRLLRAEEEIEL 93
Query: 225 FKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNL 284
+ + + +++E+++ +L RE +D E + +M ++ L +GR A++K+++ NL
Sbjct: 94 ARKIADLLELERIRERIEDELDREISDAEWGKEVDMELRPFRRRLFLGRRAKDKMVQSNL 153
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R
Sbjct: 154 RLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 210
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
++ S T R+P L T I++ L E+ R PT+EEI + + ++ E+ R
Sbjct: 211 AIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEMGRKPTEEEIAERMEMTIEKLRF 265
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESL 463
+ K+++ +SL + G ++ + + DG E+Q +LLR L++VLD+L P+E
Sbjct: 266 IAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSKSLLREDLENVLDTLSPRERD 325
Query: 464 VIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 326 VLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 379
>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 = 162 bits (410), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 171/305 (56%), Gaps = 10/305 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+LS++E L + +Q + +++ +LQ+D+GREPT E ++A ++ ++ ++ GR+
Sbjct: 283 LLSASEEVALSRKIQDILKLEKIRAELQRDIGREPTLSEWSQAVSLDQTSLELRVKEGRS 342
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++KL+ NLRLV+ ++K Y G DL Q G GLI ++F+P+ ++ STY
Sbjct: 343 AKDKLVNSNLRLVVSIVKNY---QGRGMTLPDLIQEGSLGLIRGAEKFDPEMGYKFSTYA 399
Query: 335 LFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR A+ R++ S R+P I +V I +AK+ + EL R P DEE+
Sbjct: 400 TWWIRQAVTRAIADQSRIIRLP-----VHIYEVISRINKAKMTISQELGRQPRDEEVAAM 454
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQRQPALLRLALDD 452
V +S E+ ++K+++P S+ G E+ + + GV + E+ +L+ ++D
Sbjct: 455 VGMSVEKLLFIVKSARPPTSMDRPIGKDGEQSLGEMVADKGVGSPEDDIMTQVLKQDIED 514
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL SL P E V+R RFGL G TL ++ ++RE +R+ E K L KL+HP+
Sbjct: 515 VLRSLNPMEREVLRLRFGLSGAQSMTLKDLGIIFKVTRERIRQIEAKALRKLRHPSWKTL 574
Query: 513 LRQHM 517
L+ H+
Sbjct: 575 LQDHV 579
>gi|443320294|ref|ZP_21049405.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442790001|gb|ELR99623.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 376
Score = 162 bits (410), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 176/321 (54%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L + E L + + + Q +E+L ++L R P D E A +
Sbjct: 63 YTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELEQKREKLWQELKRIPNDREWAAS 122
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 123 VEMELPAFRRRLYLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 179
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 180 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKI 234
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 235 LSQEMGRKPTEEEIATHMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET 294
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+ LLR L+ VLDSL P+E V+R R+GLD +TL EI +++RE +R+
Sbjct: 295 PEDDVSKNLLREDLEHVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQI 354
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 355 EAKALRKLRHPNRNSILKEYV 375
>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 = 160 bits (405), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 106/312 (33%), Positives = 171/312 (54%), Gaps = 13/312 (4%)
Query: 201 DLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNM 260
+LVS K + P+L+ + L K +Q + +++ L + + REPT E AEATN+
Sbjct: 9 NLVSRYLKGIGRFPLLTHEQEITLGKTVQQLMKLEAIRDDLTETMDREPTLAEWAEATNL 68
Query: 261 SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRF--QDLCQAGVKGLITA 318
S +KK +E+G+ A++K+++ NLRLV+ + KKY G + DL Q G GL
Sbjct: 69 SPEALKKTVEIGQQAKDKMMRSNLRLVVSIAKKY-----RGSKLDMMDLIQEGSLGLCRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ + T R+P I + +I++A+ E+
Sbjct: 124 VEKFDPLKGYRFSTYAYWWIRQAITRAIADTGRTIRLPI-----HINEKLSKIRKAQREV 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
EL R T E+ + V++ E+ RE+ + S+ LSL+ R G Q + + + D
Sbjct: 179 SLELGRPATVSEVAEKVSLPAEKVRELQRQSRLPLSLNMRIGSEQNTELGALLESDSQSP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E LL+ + +L L ++ VI RFGLD +TL +I +L+ISRE VR+ E
Sbjct: 239 EEYATQNLLKRDIGQLLARLTERQKDVISMRFGLDDGKKKTLAQIGHDLDISRERVRQIE 298
Query: 498 VKGLMKLKHPTR 509
K L L+H R
Sbjct: 299 RKALRTLRHTGR 310
>gi|17233195|ref|NP_490285.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
gi|17135717|dbj|BAB78263.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
Length = 316
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 107/320 (33%), Positives = 174/320 (54%), Gaps = 11/320 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S S+DLV + +++ P+L+S + +L+Q M + + +L + L REPT +ELA
Sbjct: 3 SLSSDLVRIYLQEIGQFPLLTSDQEITYARLVQQMIALQEQQHELTQKLEREPTTLELAN 62
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N + AQV + LE+G+ A+ K+I NLRLV+ + KKY + F DL Q G GL
Sbjct: 63 FLNKTEAQVNQILELGQRAKQKMITANLRLVVSIAKKYQR---RNLEFLDLVQEGAIGLQ 119
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
I++F+P R ++LSTY +W+ AI R++ S T R+P + + +I++ +
Sbjct: 120 RGIEKFDPNRGYKLSTYAYWWVTQAITRAIAEKSRTVRLPI-----HVNEKLNQIKKVQR 174
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
E L R T EI Q + + P + RE +K + +SL + G +E ++ + +GV
Sbjct: 175 EFFQTLGRRATVAEIAQKLELEPSQIREYLKVASGTISLDLKIGDNKETELSELLASEGV 234
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ +LR L D+L SLKP + V+ RFGL +++L +I LN+SRE VR+
Sbjct: 235 SPDENITHEMLRQDLSDLLASLKPMQREVLILRFGLLDNQEQSLAQIGEKLNLSRERVRQ 294
Query: 496 HEVKGLMKLK--HPTRVDYL 513
+ K + L+ P+ YL
Sbjct: 295 IQQKAMTALRRQQPSIGQYL 314
>gi|423065852|ref|ZP_17054642.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|406712610|gb|EKD07794.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 372
Score = 159 bits (403), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E+L + REP + E A A
Sbjct: 59 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANA 118
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M + ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 119 VDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 175
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 176 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 230
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 231 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 290
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 291 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 350
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 351 EAKALRKLRHPNRNSILKEYI 371
>gi|209523577|ref|ZP_03272131.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|376004385|ref|ZP_09782099.1| RNA polymerase sigma factor rpoD [Arthrospira sp. PCC 8005]
gi|209495982|gb|EDZ96283.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|375327277|emb|CCE17852.1| RNA polymerase sigma factor rpoD [Arthrospira sp. PCC 8005]
Length = 387
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E+L + REP + E A A
Sbjct: 74 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANA 133
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M + ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 134 VDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 190
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 191 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 245
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 246 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 305
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 306 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 365
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 366 EAKALRKLRHPNRNSILKEYI 386
>gi|409993807|ref|ZP_11276936.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str.
Paraca]
gi|291570496|dbj|BAI92768.1| principal RNA polymerase sigma factor SigA [Arthrospira platensis
NIES-39]
gi|409935351|gb|EKN76886.1| RNA polymerase sigma factor RpoD [Arthrospira platensis str.
Paraca]
Length = 387
Score = 159 bits (402), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 180/321 (56%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + +++E+L + REP + E A A
Sbjct: 74 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEHYHREPNEKEWANA 133
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M + ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 134 VDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 190
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 191 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 245
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 246 LSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 305
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+Q LLR L+ VLD+L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 306 PEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 365
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 366 EAKALRKLRHPNRNSILKEYI 386
>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 = 158 bits (400), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 111/347 (31%), Positives = 183/347 (52%), Gaps = 20/347 (5%)
Query: 172 KVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPM 231
K T R+ SK +H Y+ D + L +++ +L + E L + + +
Sbjct: 43 KARTARRRGQSKKKH-----------YTEDSIRLYLQEIGRIRLLRADEEIELARKIADL 91
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVI 291
++ + L L REP E A +M + + L GR A++K+++ NLRLV+ +
Sbjct: 92 LELERIYDDLFDRLEREPQLQEWALEVDMPLNRFRHRLHAGRRAKDKMVQSNLRLVVSIA 151
Query: 292 KKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSF 351
KKY G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S
Sbjct: 152 KKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSR 208
Query: 352 T-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKP 410
T R+P L T I++ L E+ R PT+EEI + ++ E+ R + K+++
Sbjct: 209 TIRLPVHLYETI-----SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQL 263
Query: 411 ILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G ++ + + DG E+Q +LLR L+ VLD+L P+E V++ R+G
Sbjct: 264 PISLETPIGKEEDSRLGDFIESDGETPEDQVSKSLLREDLETVLDTLSPRERDVLKLRYG 323
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD +TL EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 324 LDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 370
>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 = 157 bits (398), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 163/303 (53%), Gaps = 11/303 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+S + + +Q M + K+QL + L REPT ELA+ N S +V + L+ G+
Sbjct: 13 PLLTSDQEITYGRQVQQMIAIEEHKQQLSQQLHREPTLAELADFVNKSETEVNQILQQGQ 72
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I NLRLV+ V KKY F DL Q G GL I++F+P R ++LSTY
Sbjct: 73 RAKQKMITANLRLVVSVAKKYQH---RNLEFLDLVQEGAIGLQRGIEKFDPNRGYKLSTY 129
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WI AI R++ S T R+P + + +I++A+ EL L R T EI Q
Sbjct: 130 AYWWISQAITRAIAEKSRTVRLP-----VHVNEKLNQIKKAQRELFQTLNRRATVTEIAQ 184
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+N+ P + RE + + +SL + G Q+ ++ + +G+ Q LLR L D
Sbjct: 185 KLNLEPSQIREYLSVASGTISLDLKVGDNQDTELSELLPDEGISPNEQITQELLRQDLSD 244
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK--HPTRV 510
+L SLKP + V+ RFGL +R+L +I LN+SRE VR+ + + + L+ P+
Sbjct: 245 LLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQIQQQAMTALRRQQPSIE 304
Query: 511 DYL 513
YL
Sbjct: 305 QYL 307
>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 = 157 bits (396), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 179/322 (55%), Gaps = 9/322 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+Y+ D + L +++ +L + E L + + + +++++L + L R P+D E A
Sbjct: 85 TYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAA 144
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A + + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 145 AVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLI 201
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 202 RAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTK 256
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 257 LLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGE 316
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E++ LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 317 TPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 376
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 377 IEAKALRKLRHPNRNSILKEYI 398
>gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942]
Length = 384
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 179/322 (55%), Gaps = 9/322 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+Y+ D + L +++ +L + E L + + + +++++L + L R P+D E A
Sbjct: 70 TYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAA 129
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A + + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 130 AVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLI 186
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 187 RAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTK 241
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 242 LLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGE 301
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E++ LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 302 TPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 361
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 362 IEAKALRKLRHPNRNSILKEYI 383
>gi|81299460|ref|YP_399668.1| RNA polymerase sigma factor RpoD [Synechococcus elongatus PCC 7942]
gi|93141306|sp|P38023.2|RPOD1_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD1
gi|81168341|gb|ABB56681.1| Sigma-70 factor [Synechococcus elongatus PCC 7942]
Length = 399
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 179/322 (55%), Gaps = 9/322 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+Y+ D + L +++ +L + E L + + + +++++L + L R P+D E A
Sbjct: 85 TYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAA 144
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A + + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 145 AVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLI 201
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 202 RAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTK 256
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 257 LLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGE 316
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E++ LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 317 TPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQ 376
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 377 IEAKALRKLRHPNRNSILKEYI 398
>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 = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 104/312 (33%), Positives = 174/312 (55%), Gaps = 11/312 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S D V +K+M P+L E L + ++ + F +++++LQ ++ R+P E+A
Sbjct: 70 SDDAVGAFFKEMARYPLLKPEEEVELARRVKFIVEFEEIQQRLQAEIKRQPNKAEVATLL 129
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
MS Q++ L GR A+ K+I+ NLRLV+ + K+Y G F DL Q G GL A
Sbjct: 130 GMSERQLEHRLYQGRVAKRKMIRSNLRLVVSIAKRYLN---RGLPFLDLIQEGAMGLNRA 186
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+P + ++ STY +WIR AI R++ + T R+P I++ ++++A+ EL
Sbjct: 187 AEKFDPDKGYKFSTYAYWWIRQAITRAIANDARTIRLPI-----HIVEKLNKLKKAQREL 241
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVE 436
+L+R P++ E+ Q + IS E R++++ + LSL+ R G ++ E ++ + D D
Sbjct: 242 KQQLQRNPSEVELAQFLEISAEHLRQLLQLRRKSLSLNHRVGKEEDTELVDLLEDEDSQS 301
Query: 437 NENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E Q ++R + DVL D L P+E VI R+GL TL E+ N+SRE VR+
Sbjct: 302 PEQQMSETMMRQEIWDVLGDVLTPREKDVISLRYGLITSEPCTLEEVGSIFNLSRERVRQ 361
Query: 496 HEVKGLMKLKHP 507
+ K + KL+ P
Sbjct: 362 IQSKAMRKLRRP 373
>gi|406956443|gb|EKD84538.1| hypothetical protein ACD_38C00204G0004 [uncultured bacterium]
Length = 363
Score = 156 bits (395), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 97/279 (34%), Positives = 155/279 (55%), Gaps = 14/279 (5%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q +D+G+ P L A + A KK + +AAR+KLI NLRLV+ + KKY
Sbjct: 97 QYLRDIGKIPL---LTAADEIELA--KKAEKNVKAARDKLISANLRLVVSIAKKYV---G 148
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G DL + G GL+ A+D+++ +R ++ STY +WIR AI R++ + T R+P
Sbjct: 149 RGMSLLDLIEEGNIGLMRAVDKYDWRRGYKFSTYATWWIRQAITRAIADQARTIRIP--- 205
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ R + +L+ EL R PT EE+ + + I + RE++K S+ SL +
Sbjct: 206 --VHMVETINRFNRTQRKLMQELGREPTPEEVAKALGIDETKAREIIKVSQEPTSLETPV 263
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + G++ + Q LL++ LD+VLDSL P+E V++ RFGL+ RT
Sbjct: 264 GDEEDSHLGDFIADQGLQPDEQATRELLKIHLDEVLDSLSPREKRVLQLRFGLEDGKQRT 323
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ ++RE +R+ E K + KLKHPTR LR ++
Sbjct: 324 LEEVGKEFGVTRERIRQIEAKAIRKLKHPTRAKKLRDYL 362
>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 = 155 bits (393), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 103/309 (33%), Positives = 173/309 (55%), Gaps = 16/309 (5%)
Query: 215 VLSSTEHTWLFKLMQPMKVFV--QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVG 272
+L+++E L + +Q + V +VK LQ+++GREP+ E + A M + ++ G
Sbjct: 288 LLTASEEVALSRKIQARDLLVLEKVKSDLQREIGREPSIGEWSRAVGMEQNAFELRVKEG 347
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R +++K++ NLRLV+ ++K Y G DL Q G GLI ++F+P + F+ ST
Sbjct: 348 RYSKDKMVNSNLRLVVSIVKNYQ---GRGMTLPDLIQEGSMGLIRGAEKFDPDKGFKFST 404
Query: 333 YGLFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR A+ R++ S R+P L +V I +AK L+ E R P DEE+
Sbjct: 405 YAHWWIRQAVTRAIADQSRIIRLPIHL-----YEVISRINKAKKMLIQEHGRQPRDEEVA 459
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT---DVDGVENENQRQPALLRL 448
+ V +S E+ + ++K++K S+ G +++ I + DV+ E++ RQ +L+
Sbjct: 460 ELVGMSVEKLKFIVKSAKTPSSMDRLIGKEKDQSIGEMIADKDVESPEDDLIRQ--VLKQ 517
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
+D VL +L P+E V+R RFGLD RTL EI ++RE +R+ E K + KL+ P+
Sbjct: 518 DVDGVLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKAMRKLRQPS 577
Query: 509 RVDYLRQHM 517
R LR+++
Sbjct: 578 RNGVLREYL 586
>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 = 155 bits (391), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 104/321 (32%), Positives = 177/321 (55%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + L +++ +L + E L + + + ++++ L + EP D + A A
Sbjct: 63 YTEDSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDDLSDGMDHEPDDADWAAA 122
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+M ++ L +GR A++K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 123 VDMPLPAFRRRLHLGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 179
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 180 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKL 234
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L EL R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG
Sbjct: 235 LSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGET 294
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E++ +LLR L+ VL +L P+E V+R R+GLD +TL EI N++RE +R+
Sbjct: 295 PEDEVSKSLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQI 354
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 355 EAKALRKLRHPNRNSVLKEYI 375
>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 = 155 bits (391), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 174/322 (54%), Gaps = 11/322 (3%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L E L + + + ++ Q + D GREP + E A
Sbjct: 145 YTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEWAAL 204
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M + ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 205 VEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 261
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 262 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKV 316
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + D +E
Sbjct: 317 LSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD-IE 375
Query: 437 N-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
N E LLR L+ VL +L P+E V+R R+GLD +TL EI +++RE +R+
Sbjct: 376 NPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 435
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 436 IEAKALRKLRHPNRNGVLKEYI 457
>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 = 154 bits (390), Expect = 7e-35, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 174/322 (54%), Gaps = 11/322 (3%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L E L + + + ++ Q + D GREP + E A
Sbjct: 122 YTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEWAAL 181
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M + ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 182 VEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 238
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 239 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKV 293
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + D +E
Sbjct: 294 LSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD-IE 352
Query: 437 N-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
N E LLR L+ VL +L P+E V+R R+GLD +TL EI +++RE +R+
Sbjct: 353 NPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 412
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 413 IEAKALRKLRHPNRNGVLKEYI 434
>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 = 154 bits (390), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 108/327 (33%), Positives = 172/327 (52%), Gaps = 16/327 (4%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELA--- 255
STDLV L +++ P+L E L + +Q + V+ +LQK+LGREPT E A
Sbjct: 42 STDLVRLYLQEIGRVPLLGRDEEVALAQRVQDYMKLLDVRLRLQKELGREPTLAEWAARA 101
Query: 256 ----EATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
E N++ ++++ +G+ A+ +IK NLRLV+ V KKY G DL Q G
Sbjct: 102 NQYPEWANLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQN---RGLELLDLIQEG 158
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL A+++F+PK+ +R STY +WIR I R++ S T R+P I + +I
Sbjct: 159 TLGLERAVEKFDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLP-----VHITEKLNKI 213
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 430
++A+ +L E R PT E+I + ++ + RE++ +SL ++ G ++ + +
Sbjct: 214 KKAQRKLSQEKGRTPTIEDIASELEMTVPQVRELLVRVPRSVSLETKVGKDKDTELGDLL 273
Query: 431 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 490
+ D + E L L +L L +E VIR RFGL +L EI L++SR
Sbjct: 274 ETDDISPEETMMREALHRDLQQLLADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSR 333
Query: 491 EMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E VR+ E K L KL+ P R + +R ++
Sbjct: 334 ERVRQIEAKALQKLRQPKRRNRVRDYL 360
>gi|75812337|ref|YP_319956.1| sigma-28 [Anabaena variabilis ATCC 29413]
gi|75705093|gb|ABA24767.1| Sigma-28 [Anabaena variabilis ATCC 29413]
Length = 316
Score = 154 bits (390), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 110/321 (34%), Positives = 177/321 (55%), Gaps = 13/321 (4%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S S+DL+ + +++ P+L+S + + +Q M + ++QL + L REPT ELA
Sbjct: 3 SLSSDLIRIYLQEIGQFPLLTSDQEITYGRQVQQMIAIQEQQQQLSQQLHREPTTAELAN 62
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N + AQV + LE+G+ A+ K+I NLRLV+ + KKY + F DL Q G GL
Sbjct: 63 FLNTTQAQVNQILELGQRAKQKMITANLRLVVSIAKKYQR---RNLEFLDLVQEGAIGLQ 119
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
I++F+P R ++LSTY +W+ AI R++ S T R+P + + +I++ +
Sbjct: 120 RGIEKFDPNRGYKLSTYAYWWVTQAITRAIAEKSRTVRLPI-----HVNEKLNQIKKVQR 174
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
E L R P+ EI Q + + P + RE +K + +SL + G QE ++ + +GV
Sbjct: 175 EFFQTLGRRPSVAEIAQKLELEPSQIREYLKVASGTISLDLKVGDNQETELSELLASEGV 234
Query: 436 E-NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
NEN +LR L D+L SLKP + V+ RFGL +++L +I+ LN+SRE VR
Sbjct: 235 SPNENTTHE-MLRQDLSDLLASLKPMQREVLILRFGLLDNQEQSLAQISEKLNLSRERVR 293
Query: 495 KHEVKGLMKLK--HPTRVDYL 513
+ + K + L+ P+ YL
Sbjct: 294 QIQQKAMTALRRQQPSIGQYL 314
>gi|356509511|ref|XP_003523491.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 558
Score = 154 bits (390), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 96/306 (31%), Positives = 163/306 (53%), Gaps = 10/306 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L+ TE L +Q + +++E L + G +PT + A + ++K L G
Sbjct: 260 LLTPTEEIKLSAGIQDLLKLEKIQEDLAERFGSQPTFAQWAAVAGVDQKTLRKRLNYGIF 319
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
++K+IK N+RLV+ + K Y +G QDL Q G +GL+ ++F+ + F+ STY
Sbjct: 320 CKDKMIKSNIRLVISIAKNYQ---GSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYA 376
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WI+ A+ +S++ S T R+PF + ++ ++ A+ +L E R P DEE+ +
Sbjct: 377 HWWIKQAVRKSLSDQSRTIRLPFHM-----VEATYRVKEARKQLYSENGRQPDDEEVAEA 431
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDD 452
+S +R V+ K SL + G+ Q + I+D D E Q ++ L++
Sbjct: 432 TGLSMKRLNAVLMTPKAPRSLEQKIGINQNLKPSEVISDPDAETAEEQLLKQFMKKDLEE 491
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
LDSL P+E V+R RFG+D +TL EI L +SRE +R+ E KLK+ R ++
Sbjct: 492 ALDSLNPRERQVVRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLKNKKRTNH 551
Query: 513 LRQHMV 518
L+Q++V
Sbjct: 552 LQQYLV 557
>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 = 154 bits (389), Expect = 9e-35, Method: Compositional matrix adjust.
Identities = 99/280 (35%), Positives = 156/280 (55%), Gaps = 11/280 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + D GREP E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 185 QFESDNGREPDTKEWAALVEMPVIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 241
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 242 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 301
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 302 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 356
Query: 419 GVTQEEFINGITDVDGVEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + + D +EN E LLR L+ VL +L P+E V+R R+GLD +
Sbjct: 357 GKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMK 415
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 416 TLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 455
>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 = 154 bits (389), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 103/325 (31%), Positives = 178/325 (54%), Gaps = 13/325 (4%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLG----REPTDVE 253
Y+ D + L +++ +L + E L + + + Q +E+L ++G E +D +
Sbjct: 95 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELEQQREELANEMGLDDPEEVSDSD 154
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
A +M + ++ L GR A++K+++ NLRLV+ + KKY G FQDL Q G
Sbjct: 155 WAVKVDMPLPRFRRRLYEGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSL 211
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 212 GLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKK 266
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ + +
Sbjct: 267 TTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIES 326
Query: 433 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
DG ++Q LLR L++VL +L P+E V++ R+GLD +TL EI N++RE
Sbjct: 327 DGETPDDQVAKNLLREDLENVLGTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRER 386
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP R L++++
Sbjct: 387 IRQIEAKALRKLRHPNRNSVLKEYI 411
>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 = 154 bits (389), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 172/308 (55%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STDLV K++ P+L+ + K ++ + +VKE L + LGREPT E A A+
Sbjct: 7 STDLVRTYLKEIGRVPLLTHEQEISYGKKVKQLTTLKEVKESLVQQLGREPTFSEWATAS 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++ +Q+K + VG +A+ K+++ NLRLV+ V KKY + DL Q G GL
Sbjct: 67 CLTDSQLKSSIAVGESAKRKMVEANLRLVVAVAKKYIK---RNLELLDLIQEGTIGLQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R T E+ +N++P++ RE + ++ LSL R G ++ + + + G
Sbjct: 179 SQKLGRTATISELAIELNLTPDQLREYFEQARQPLSLELRVGDNKDTELVELLEDTGPGP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ +L++L L+ +D L P++ V+R R+GL TL +I +LNISRE VR+ E
Sbjct: 239 EDFVNQSLMQLDLEKFMDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ + KL+
Sbjct: 299 REAIAKLR 306
>gi|407327703|dbj|BAM45409.1| sigma factor 2 [Marchantia polymorpha]
Length = 615
Score = 154 bits (389), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 102/307 (33%), Positives = 168/307 (54%), Gaps = 14/307 (4%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L+S+E L + +Q + VK L++ +GREPT +E A+A ++ ++ G+A
Sbjct: 317 LLTSSEEIELAEGIQDLLRVESVKNDLREQMGREPTLMEWAKAVGTERHSLESRIKSGQA 376
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
+++++ NLRLV+ + K+Y G QDL Q G GLI ++F+ R F+ STY
Sbjct: 377 CKDRMVNSNLRLVVSIAKRYQ---GRGMTIQDLIQEGSMGLIRGAEKFDHTRGFKFSTYA 433
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P + ++ I +AK L E R P DEE+ +
Sbjct: 434 HWWIRQAITRAIADQSRTIRLPV-----HVYELLSRITKAKSMLAAEHGRAPRDEEVAEL 488
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT---DVDGVENENQRQPALLRLAL 450
V +S E+ + V+K+++ S+ G + + + D+D E ++ LL+ L
Sbjct: 489 VGLSIEKLKMVIKSARSPKSMEFPVGKNNDTTLGEVIPDKDIDSPEEAISKR--LLKQDL 546
Query: 451 DDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRV 510
D VL +L P+E V+R R+GLD RTL EI ++RE +R+ E K L KL+ P+R
Sbjct: 547 DVVLHTLSPRERDVLRLRYGLDDGRMRTLEEIGNVFKVTRERIRQIEAKALRKLRQPSRN 606
Query: 511 DYLRQHM 517
LR+++
Sbjct: 607 TALREYL 613
>gi|172035791|ref|YP_001802292.1| RNA polymerase sigma factor RpoD [Cyanothece sp. ATCC 51142]
gi|354555027|ref|ZP_08974330.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171697245|gb|ACB50226.1| group 1 sigma-70 RNA polymerase sigma factor A [Cyanothece sp. ATCC
51142]
gi|353553181|gb|EHC22574.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 416
Score = 154 bits (388), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 92/255 (36%), Positives = 149/255 (58%), Gaps = 9/255 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K+ L +GR A++K++ NLRLV+ + KKY G FQDL Q G GLI A ++F+
Sbjct: 169 KFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFD 225
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ S T R+P L T I++ L E++
Sbjct: 226 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMR 280
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 281 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVS 340
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 341 KNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALR 400
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 401 KLRHPNRNSILKEYI 415
>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 = 154 bits (388), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 102/321 (31%), Positives = 170/321 (52%), Gaps = 9/321 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L E L + + + ++ Q + D GREP E A
Sbjct: 138 YTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEWAAL 197
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M + ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 198 VEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 254
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 255 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKV 309
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + D
Sbjct: 310 LSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIEN 369
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LLR L+ VL +L P+E V+R R+GLD +TL EI +++RE +R+
Sbjct: 370 PEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQI 429
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 430 EAKALRKLRHPNRNGVLKEYI 450
>gi|284928680|ref|YP_003421202.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A]
gi|284809139|gb|ADB94844.1| hypothetical protein UCYN_00890 [cyanobacterium UCYN-A]
Length = 420
Score = 154 bits (388), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 92/255 (36%), Positives = 149/255 (58%), Gaps = 9/255 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K+ L +GR A++K++ NLRLV+ + KKY G FQDL Q G GLI A ++F+
Sbjct: 173 KFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFD 229
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ S T R+P L T I++ L E++
Sbjct: 230 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMR 284
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 285 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVA 344
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 345 KNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALR 404
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 405 KLRHPNRNSVLKEYI 419
>gi|126659035|ref|ZP_01730176.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110]
gi|126619692|gb|EAZ90420.1| RNA polymerase sigma factor RpoD [Cyanothece sp. CCY0110]
Length = 416
Score = 154 bits (388), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 92/255 (36%), Positives = 149/255 (58%), Gaps = 9/255 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K+ L +GR A++K++ NLRLV+ + KKY G FQDL Q G GLI A ++F+
Sbjct: 169 KFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFD 225
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ S T R+P L T I++ L E++
Sbjct: 226 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMR 280
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 281 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVS 340
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 341 KNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALR 400
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 401 KLRHPNRNSILKEYI 415
>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 = 154 bits (388), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 173/322 (53%), Gaps = 11/322 (3%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
Y+ D + + +++ +L E L + + + ++ Q + D GREP E A
Sbjct: 138 YTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEWAAL 197
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
M + ++ L +GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI
Sbjct: 198 VEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIR 254
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 255 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKV 309
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L E R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + + D +E
Sbjct: 310 LSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD-IE 368
Query: 437 N-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
N E LLR L+ VL +L P+E V+R R+GLD +TL EI +++RE +R+
Sbjct: 369 NPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQ 428
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP R L++++
Sbjct: 429 IEAKALRKLRHPNRNGVLKEYI 450
>gi|33866315|ref|NP_897874.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8102]
gi|33639290|emb|CAE08298.1| Putative principal RNA polymerase sigma factor [Synechococcus sp.
WH 8102]
Length = 471
Score = 154 bits (388), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 97/283 (34%), Positives = 155/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D GREP E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 196 ELAAQFESDNGREPDKKEWAALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 255
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 256 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 312
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 313 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 367
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 368 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 427
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 428 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 470
>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 = 153 bits (387), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 97/279 (34%), Positives = 153/279 (54%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + D GREP E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 208 QFESDNGREPDTKEWAALVEMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 264
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 265 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 324
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 325 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 379
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+GLD +T
Sbjct: 380 GKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKT 439
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 440 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 478
>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 = 153 bits (387), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 97/284 (34%), Positives = 163/284 (57%), Gaps = 11/284 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ +Q ++D G+ P + E A +M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 126 ELADQYEEDHGKYPDNREWAVLVDMPPIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 185
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 186 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 242
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 243 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 297
Query: 415 HSRHGVTQEEFINGITDVDGVENENQR-QPALLRLALDDVLDSLKPKESLVIRQRFGLDG 473
+ G ++ + + D +EN +Q LLR L+ VL +L P+E V+R R+GLD
Sbjct: 298 ETPIGKEEDSRLGDFIEAD-IENPDQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDD 356
Query: 474 KGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L+KL+HP R L++++
Sbjct: 357 GRMKTLEEIGQIFDVTRERIRQIEAKALLKLRHPNRNGVLKEYI 400
>gi|221134905|ref|ZP_03561208.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola sp. HTCC2999]
Length = 607
Score = 153 bits (387), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 172/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ T W +K+++ K +V V E Q+D+ R + + EA T + A +K + +G
Sbjct: 303 NETSTDWYYKILKTSKPYVLVLETFQEDIERSVSKMNAVEAETGLCIADIKDINRRMSIG 362
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 363 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 419
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 420 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 474
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 475 EELSERMIMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDNTIIQPLDSA 529
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 530 TGGSLKDATQDVLAGLTQREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 589
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 590 RKLRHPSRSEQLRSFL 605
>gi|67921267|ref|ZP_00514786.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|416403884|ref|ZP_11687612.1| Group 2 RNA polymerase sigma factor @ RNA polymerase sigma factor
RpoD [Crocosphaera watsonii WH 0003]
gi|67857384|gb|EAM52624.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|357261629|gb|EHJ10875.1| Group 2 RNA polymerase sigma factor @ RNA polymerase sigma factor
RpoD [Crocosphaera watsonii WH 0003]
Length = 414
Score = 153 bits (387), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 92/255 (36%), Positives = 149/255 (58%), Gaps = 9/255 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K+ L +GR A++K++ NLRLV+ + KKY G FQDL Q G GLI A ++F+
Sbjct: 167 KFKRRLYLGRRAKDKMVHSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFD 223
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ S T R+P L T I++ L E++
Sbjct: 224 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMR 278
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 279 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVS 338
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 339 KNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALR 398
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 399 KLRHPNRNSILKEYI 413
>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 = 153 bits (386), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 103/326 (31%), Positives = 177/326 (54%), Gaps = 14/326 (4%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE---- 253
Y+ D + L +++ +L + E L + + + ++++++ + L +P D+E
Sbjct: 64 YTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRISEQLDCDPDDLERHPE 123
Query: 254 -LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
A M+ + L VGR A+ K+++ NLRLV+ + KKY G FQDL Q G
Sbjct: 124 PWASEVKMTLPAFRHRLFVGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGS 180
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I+
Sbjct: 181 LGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIK 235
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITD 431
+ L E+ R PT+EEI + + ++ E+ R + K+++ +SL + G ++ + +
Sbjct: 236 KTTKLLSQEMGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 295
Query: 432 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISRE 491
DG E+Q LLR L+ VL +L P+E V++ R+GLD +TL EI N++RE
Sbjct: 296 SDGETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRE 355
Query: 492 MVRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP R L++++
Sbjct: 356 RIRQIEAKALRKLRHPNRNSVLKEYI 381
>gi|407961401|dbj|BAM54641.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 328
Score = 153 bits (386), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 169/310 (54%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+++ D+V ++ P+L+ + L K +Q M ++ K+ L LGREP+D E AE
Sbjct: 14 TFTADMVRSYLHEIGRVPLLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWAE 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A ++S ++ + L G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 AADLSVTKLHRYLGQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ T R+P I + +I++ +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T E+ + + I P + RE + S+ +SL R G Q+ ++ + + +GV
Sbjct: 186 ELSQQLGRSATPAEVAKALEIDPSQIREYLSLSRQPISLDVRVGDNQDTELSELLEDEGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ +R L ++L L P++ V+ RFGL+ + +L +I +LNISRE VR+
Sbjct: 246 SPDAYITQESMRQDLQNLLAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L +LK
Sbjct: 306 LENQALAQLK 315
>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 = 152 bits (385), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 168/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+ D+V +++ P+LS + K +Q M +VKE L+K+L RE T E A+
Sbjct: 20 TVDMVRTYLQEIGKVPLLSHEQEIVFGKQVQQMMSLYEVKENLEKNLEREVTLEEWAQKA 79
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+ + +VKK + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 80 DKTPNEVKKIIHQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERG 136
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + F+ STY +WIR AI R++ + T R+P I + +I++ + EL
Sbjct: 137 VEKFDPTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQREL 191
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R P+ EI + + + P + RE ++ +SL + G Q+ ++ + + +GV
Sbjct: 192 SQKLGRSPSPNEIAEALQLEPAQIREYFSIARQPISLDVKVGDNQDTELSELLEDEGVSP 251
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+N L+R L +L L P++ V+R RFGL+ + +L +I +NISRE VR+ E
Sbjct: 252 DNYITQELMRQDLQKLLGELTPQQQQVVRLRFGLEDGKELSLAKIGQRMNISRERVRQLE 311
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 312 QQALAHLR 319
>gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis]
Length = 495
Score = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 166/314 (52%), Gaps = 13/314 (4%)
Query: 206 DWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
DW ++ L+++E L + +Q + +++ + ++ G+EPT + AE + +
Sbjct: 191 DWSSSRL---LTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTL 247
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K LEVGR + +K+I NLRLV+ V K Y G QDL QAG GL+ + ++F+
Sbjct: 248 KMRLEVGRDSFDKIINCNLRLVISVAKNYQN---RGLSLQDLIQAGSMGLMRSAEKFDYS 304
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R F+ STY +WIR +I +++T S T R+P I++ I+ A L E KR
Sbjct: 305 RGFKFSTYAYWWIRQSITKALTEQSRTIRLP-----VHIVESMTRIRTAWRLLYQEHKRD 359
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQRQP 443
PT EE+ + IS R R V + S+ SL G +E F + D + E
Sbjct: 360 PTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSK 419
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L + LD VLD+L +E V+R R+GLD ++L E+ N ++SRE VR+ E+K + K
Sbjct: 420 ELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRK 479
Query: 504 LKHPTRVDYLRQHM 517
L+ R +L+ ++
Sbjct: 480 LRQNHRTQHLKHYL 493
>gi|350421245|ref|XP_003492783.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Bombus impatiens]
Length = 615
Score = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 171/311 (54%), Gaps = 28/311 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
+W K ++ +V E ++ ++ T ++ E TN+S Q+K + +G A
Sbjct: 315 SWFEKAIKSKAAYVPKLETFHDEITQQITLLQAIEVETNLSIEQIKDINRRMSIGEAKAR 374
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 375 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 431
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT EE+ +
Sbjct: 432 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEIGREPTPEELSE 486
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L
Sbjct: 487 RMQMPEDKIRKVLKIAKEPISMETPVGDDEDSHLG-----DFIEDTSMELPLDAATSESL 541
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
RLA ++L+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 542 RLATSEILEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 601
Query: 507 PTRVDYLRQHM 517
P+R D LR +
Sbjct: 602 PSRSDVLRSFL 612
>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 = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 169/310 (54%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+++ D+V ++ P+L+ + L K +Q M ++ K+ L LGREP+D E AE
Sbjct: 31 TFTADMVRSYLHEIGRVPLLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWAE 90
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A ++S ++ + L G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 91 AADLSVTKLHRYLGQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 147
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ T R+P I + +I++ +
Sbjct: 148 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKTQR 202
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T E+ + + I P + RE + S+ +SL R G Q+ ++ + + +GV
Sbjct: 203 ELSQQLGRSATPAEVAKALEIDPSQIREYLSLSRQPISLDVRVGDNQDTELSELLEDEGV 262
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ +R L ++L L P++ V+ RFGL+ + +L +I +LNISRE VR+
Sbjct: 263 SPDAYITQESMRQDLQNLLAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQ 322
Query: 496 HEVKGLMKLK 505
E + L +LK
Sbjct: 323 LENQALAQLK 332
>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 = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 169/310 (54%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
++S D+V ++ P+L+ + K +Q M ++ K+QL +LG+EP E A
Sbjct: 14 TFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDQLAIELGKEPNLTEWAN 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
MS ++ + ++ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 QVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + +++ P + RE + S+ +SL R G Q+ ++ + + +G+
Sbjct: 186 ELSQQLGRSATPAEIAKALDLEPAQIREFLSMSRQPISLDVRVGDNQDTELSELLEDEGI 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+N L+R L D+L L P++ V+ RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDNYITQELMRQDLHDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L +L+
Sbjct: 306 LEHQALSQLR 315
>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 = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 96/283 (33%), Positives = 153/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ EQ D G P + E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 186 ELAEQFNSDHGHYPNNKEWASLVEMPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 245
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 246 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 302
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 303 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 357
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 358 ETPIGKEEDSRLGDFIESDTENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 417
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI ++RE +R+ E K L KL+HP R L++++
Sbjct: 418 RMKTLEEIGQIFEVTRERIRQIEAKALRKLRHPNRNGVLKEYI 460
>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 = 152 bits (384), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 99/313 (31%), Positives = 173/313 (55%), Gaps = 17/313 (5%)
Query: 201 DLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVK---EQLQKDLGREPTDVELAEA 257
D V +K+M P+L TE +L + +++ V+++ E+ + L R PT ELA A
Sbjct: 155 DAVGAFFKEMARYPLLQPTEE---IELARQVRIIVEIEDYSEKASETLKRRPTHAELATA 211
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ Q+++ L RAA+ ++I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 212 FGYTEGQLRQKLRQARAAKRRMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLNR 268
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+P + ++ STY +WIR I R++ + T R+P I++ ++++A+ E
Sbjct: 269 AAEKFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPI-----HIVEKLNKLKKAQRE 323
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
L EL+R PT+ E+ + ++PE+ R + + + LSL+ R G ++ E + + D + +
Sbjct: 324 LRKELQRTPTEVEVAAALEMTPEQLRTLQQVQRKSLSLNHRVGKGEDTELMELLEDGNSL 383
Query: 436 ENENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
E+Q +++R + DVL + L +E +I R+GL TL E+ G +SRE VR
Sbjct: 384 SPESQISESMMRQEISDVLTEVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVR 443
Query: 495 KHEVKGLMKLKHP 507
+ + K + KL+ P
Sbjct: 444 QIQTKAMRKLRRP 456
>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 = 152 bits (383), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 169/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STDLV +++ P+L+ + L K +Q + + ++KE L + G EPTDVE ++A
Sbjct: 7 STDLVRTYLREIGRVPLLTHEQEIVLGKQVQHLSLLHEMKETLTEQFGHEPTDVEWSQAA 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S ++++ +E G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 GLSLVELQQAIEQGETAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A EL
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKASREL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R T E+ + +SP++ RE M+ ++ LSL R G + ++ + + G
Sbjct: 179 SQQLGRTATIGELAVELELSPKQIREYMERARHPLSLDLRVGDNHDTELSELLEDTGPSP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ + +R L+ ++ L ++ VI RFGL+ TL +I LNISRE VR+ E
Sbjct: 239 EDFATHSAMRADLEKLMSELTTQQREVIALRFGLEDGQAMTLSKIGDRLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 299 REALTKLR 306
>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 = 152 bits (383), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 105/327 (32%), Positives = 171/327 (52%), Gaps = 16/327 (4%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STDLV L +++ P+L E L + +Q + ++ +LQK+LGR+PT E
Sbjct: 44 STDLVRLYLQEIGRVPLLGRDEEVALAQKVQDYMKLLDLRLRLQKELGRDPTLAEWVAKA 103
Query: 259 N-------MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
N ++ ++++ +G+ A+ +IK NLRLV+ V KKY G DL Q G
Sbjct: 104 NQYPEWAQLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQN---RGLELLDLIQEG 160
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL A+++F+PK+ +R STY +WIR I R++ S T R+P I + +I
Sbjct: 161 TLGLERAVEKFDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLP-----VHITEKLNKI 215
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 430
++A+ +L E R PT E+I + ++P + RE++ +SL ++ G ++ + +
Sbjct: 216 KKAQRKLSQEKGRTPTIEDIASELEMTPPQVRELLVRVPRSVSLETKVGKDKDTELGDLL 275
Query: 431 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 490
+ D + E L L +L L +E VIR RFGL +L EI L++SR
Sbjct: 276 ETDDISPEETMMREALHRDLQQLLSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSR 335
Query: 491 EMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E VR+ E K L KL+ P R + +R ++
Sbjct: 336 ERVRQIEAKALQKLRQPKRRNRVRDYL 362
>gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis]
Length = 592
Score = 152 bits (383), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 166/314 (52%), Gaps = 13/314 (4%)
Query: 206 DWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
DW ++ L+++E L + +Q + +++ + ++ G+EPT + AE + +
Sbjct: 288 DWSSSRL---LTASEEVELSRGIQDLIKLDRIRAKYKEKTGKEPTLAQWAEVIGVDQKTL 344
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K LEVGR + +K+I NLRLV+ V K Y G QDL QAG GL+ + ++F+
Sbjct: 345 KMRLEVGRDSFDKIINCNLRLVISVAKNYQN---RGLSLQDLIQAGSMGLMRSAEKFDYS 401
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R F+ STY +WIR +I +++T S T R+P I++ I+ A L E KR
Sbjct: 402 RGFKFSTYAYWWIRQSITKALTEQSRTIRLPV-----HIVESMTRIRTAWRLLYQEHKRD 456
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQRQP 443
PT EE+ + IS R R V + S+ SL G +E F + D + E
Sbjct: 457 PTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKFSEIVADTNSESTETIVSK 516
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L + LD VLD+L +E V+R R+GLD ++L E+ N ++SRE VR+ E+K + K
Sbjct: 517 ELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSLSRERVRQIEMKAMRK 576
Query: 504 LKHPTRVDYLRQHM 517
L+ R +L+ ++
Sbjct: 577 LRQNHRTQHLKHYL 590
>gi|37522141|ref|NP_925518.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421]
gi|35213141|dbj|BAC90513.1| principal RNA polymerase sigma factor [Gloeobacter violaceus PCC
7421]
Length = 400
Score = 152 bits (383), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 94/264 (35%), Positives = 151/264 (57%), Gaps = 9/264 (3%)
Query: 255 AEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKG 314
AEA ++ Q + + GR A++K+++ NLRLV+ + KKY G FQDL Q G G
Sbjct: 144 AEAAGIAYEQFRDRIAYGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLG 200
Query: 315 LITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRA 373
LI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 201 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKT 255
Query: 374 KLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVD 433
L EL R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + D
Sbjct: 256 TKLLSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD 315
Query: 434 GVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
G E++ LLR L+ VL++L P+E V+R R+GLD +TL EI N++RE +
Sbjct: 316 GETPEDKVAKNLLREDLEAVLNTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERI 375
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L KL+HP R L++++
Sbjct: 376 RQIEAKALRKLRHPNRNSVLKEYI 399
>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 = 151 bits (382), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 96/283 (33%), Positives = 153/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ EQ D G P + E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 169 ELAEQFNSDHGHYPNNKEWAALVEMPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 228
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 229 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 285
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 286 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 340
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 341 ETPIGKEEDSRLGDFIESDTENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 400
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI ++RE +R+ E K L KL+HP R L++++
Sbjct: 401 RMKTLEEIGQIFEVTRERIRQIEAKALRKLRHPNRNGVLKEYI 443
>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 = 151 bits (382), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 105/331 (31%), Positives = 180/331 (54%), Gaps = 14/331 (4%)
Query: 193 VREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV 252
V++ Y+ D + L +++ +L + E L + + + +V+++L ++LG ++
Sbjct: 95 VKKKHYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLEMERVRDRLCQELGCTAEEL 154
Query: 253 E-----LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDL 307
E A+ M+ + L VGR A+ K+++ NLRLV+ + KKY G FQDL
Sbjct: 155 ERNPEPWAKELGMTVPAFRHRLFVGRKAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDL 211
Query: 308 CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQV 366
Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T
Sbjct: 212 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI---- 267
Query: 367 RGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI 426
I++ L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++ +
Sbjct: 268 -SRIKKTTKLLSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRL 326
Query: 427 NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 486
+ DG E+Q LLR L+ VL +L P+E V++ R+GLD +TL EI
Sbjct: 327 GDFIESDGETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLF 386
Query: 487 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
N++RE +R+ E K L KL+HP R L++++
Sbjct: 387 NVTRERIRQIEAKALRKLRHPNRNSVLKEYI 417
>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 = 151 bits (382), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 106/323 (32%), Positives = 175/323 (54%), Gaps = 11/323 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S D V +K+M P+L + E L K +Q + ++E L L R T E A A
Sbjct: 69 SDDAVGAFFKEMARYPLLKADEEVELAKRVQFLVEVDNLQESLSSKLNRRATQAETAAAF 128
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++ Q+++ L GR A+ K+I+ NLRLV+ + K+Y G +F DL Q G GL A
Sbjct: 129 GLTERQLEQKLYQGRVAKRKMIRSNLRLVVSIAKRYLN---RGVQFLDLIQEGAMGLNRA 185
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+P + ++ STY +WIR AI R++ + T R+P I++ ++++A+ E+
Sbjct: 186 TEKFDPDKGYKFSTYAYWWIRQAITRAIANDARTIRLPI-----HIVEKLNKLKKAQREI 240
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVE 436
+L R T+ E+ Q ++ +PE+ R++ + + LSL+ R G ++ E ++ + D DG
Sbjct: 241 KQKLHRNATENELAQALDTTPEQLRQLQQLRRKSLSLNHRVGKEEDTELVDLLEDEDGQS 300
Query: 437 NENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E Q ++R + DVL D L P+E VI R+GL TL E+ N+SRE VR+
Sbjct: 301 PEQQMNETMMRQEIWDVLADVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQ 360
Query: 496 HEVKGLMKLKHPTRVDYLRQHMV 518
+ K + KL+ P L+ +V
Sbjct: 361 IQSKAMRKLRRPQIAKRLKGWLV 383
>gi|172035560|ref|YP_001802061.1| RNA polymerase sigma factor [Cyanothece sp. ATCC 51142]
gi|354554809|ref|ZP_08974112.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171697014|gb|ACB49995.1| group 2 sigma-70 RNA polymerase sigma factor B [Cyanothece sp. ATCC
51142]
gi|353552963|gb|EHC22356.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 328
Score = 151 bits (381), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 100/310 (32%), Positives = 166/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+YS D+V ++ P+L+ + K +Q M ++ KE+L + LG+EP+ E A+
Sbjct: 14 TYSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMSLLETKEELAQSLGKEPSLQEWAK 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N+ + K LE G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 EVNLEEKALTKALEQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL L R T EI Q + I P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELSQTLGRSATPAEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L +++ L P++ V+ RFGL+ + +L +I LNISRE VR+
Sbjct: 246 SPDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L +L+
Sbjct: 306 LEHQALAQLR 315
>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 = 151 bits (381), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 169/320 (52%), Gaps = 11/320 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S S D+V + +++ P+L+S + + +Q M K+QL + L REP ELA+
Sbjct: 3 SLSPDMVRVYLREIGQFPLLTSDQEITYGRQVQQMIAIEGQKKQLSQQLHREPKLAELAD 62
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N S +V + L++G+ A+ K++ NLRLV+ + KKY + DL Q G GL
Sbjct: 63 FVNKSETEVTQILQLGQRAKQKMVTANLRLVVSIAKKYQR---RNLELLDLIQEGAIGLQ 119
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKL 375
I++F+P R ++LSTY +WI AI R++ S R+P + + +I++ +
Sbjct: 120 RGIEKFDPNRGYKLSTYAYWWISQAITRAIAEKSRAVRLPI-----HVNEKLNQIKKVQR 174
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL L R T EI Q ++I + RE + A+ +SL + G Q+ ++ + DG+
Sbjct: 175 ELFQTLGRRATVTEIAQKLDIQASQIREYLSAASATISLDLKVGDNQDTELSELLSDDGI 234
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR- 494
Q +LR LD++L SLKP + V+ RFGL +R+L +I LN+SRE VR
Sbjct: 235 SPNEQITQEMLRQDLDNLLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQ 294
Query: 495 -KHEVKGLMKLKHPTRVDYL 513
+ + +++ + P YL
Sbjct: 295 IQQQAMNILRRQQPEMGQYL 314
>gi|422304379|ref|ZP_16391725.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9806]
gi|389790495|emb|CCI13646.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9806]
Length = 416
Score = 151 bits (381), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>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 = 151 bits (381), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 97/284 (34%), Positives = 158/284 (55%), Gaps = 11/284 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G P + E A +M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 228 ELAAQFEADHGHYPDNKEWAALVDMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 287
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 288 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 344
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 345 PVHLYETI-----SRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 399
Query: 415 HSRHGVTQEEFINGITDVDGVENENQR-QPALLRLALDDVLDSLKPKESLVIRQRFGLDG 473
+ G ++ + + D +EN Q LLR L+ VL +L P+E V+R R+GLD
Sbjct: 400 ETPIGKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDD 458
Query: 474 KGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 459 GRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 502
>gi|425472577|ref|ZP_18851418.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9701]
gi|389881323|emb|CCI38113.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9701]
Length = 416
Score = 151 bits (381), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>gi|390438739|ref|ZP_10227182.1| RNA polymerase sigma factor rpoD1 [Microcystis sp. T1-4]
gi|389837853|emb|CCI31306.1| RNA polymerase sigma factor rpoD1 [Microcystis sp. T1-4]
Length = 416
Score = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>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 = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 103/317 (32%), Positives = 168/317 (52%), Gaps = 11/317 (3%)
Query: 201 DLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNM 260
D V +K+M P+L+ E L KL+Q + VF ++ E+L DLGR PT E+A A
Sbjct: 70 DAVGALFKQMSRYPLLNQKEEIELAKLIQELVVFEKLPEKLANDLGRTPTKSEVAVAAGF 129
Query: 261 SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAID 320
+ +Q+ L R A+ ++I NLRLV+ + K+Y G F DL Q G GL A +
Sbjct: 130 TESQLDHRLHQCRTAKRRMISSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLNRAAE 186
Query: 321 RFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLF 379
+F+P + ++ STY +WIR I R++ T R+P +++ +++R +L
Sbjct: 187 KFDPDKGYKFSTYAYWWIRQGITRTIANQGRTIRLP-----VHVVEQINKLRRVYRDLRR 241
Query: 380 ELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENE 438
L R+P D EI Q + IS + R + + + LSL+ R G + E ++ + D + E
Sbjct: 242 SLNRIPNDTEIAQELEISLPQLRNLQQIRRKTLSLNHRLGTDENTELLDFLEDNENSTPE 301
Query: 439 NQRQPALLRLALDDVLDS-LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
Q ++R + +VL+ L +E VI R+GL TL E++ +N+SRE VR+ +
Sbjct: 302 AQMNDMMMRQDILEVLNHVLSNREQDVISLRYGLITGEPHTLDEVSRMINLSRERVRQIQ 361
Query: 498 VKGLMKLKHPTRVDYLR 514
K + KL+ P + L+
Sbjct: 362 AKAMRKLRRPQVAERLK 378
>gi|166368188|ref|YP_001660461.1| RNA polymerase sigma factor RpoD [Microcystis aeruginosa NIES-843]
gi|425464857|ref|ZP_18844167.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9809]
gi|166090561|dbj|BAG05269.1| principal RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
gi|389833005|emb|CCI22864.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9809]
Length = 416
Score = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>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 = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 97/280 (34%), Positives = 157/280 (56%), Gaps = 11/280 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q ++D G P + E A +M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 198 QFEQDNGHYPDNKEWAVLVDMPPVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 254
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 255 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 314
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 315 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 369
Query: 419 GVTQEEFINGITDVDGVENENQR-QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + + D +EN Q LLR L+ VL +L P+E V+R R+GLD +
Sbjct: 370 GKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMK 428
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 429 TLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 468
>gi|425439972|ref|ZP_18820283.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9717]
gi|389719676|emb|CCH96511.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9717]
Length = 416
Score = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>gi|425454830|ref|ZP_18834556.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9807]
gi|159026614|emb|CAO86546.1| rpoD1 [Microcystis aeruginosa PCC 7806]
gi|389804393|emb|CCI16640.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9807]
Length = 416
Score = 150 bits (380), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>gi|260893571|ref|YP_003239668.1| RpoD subfamily RNA polymerase sigma-70 subunit [Ammonifex degensii
KC4]
gi|260865712|gb|ACX52818.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex
degensii KC4]
Length = 369
Score = 150 bits (379), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 99/283 (34%), Positives = 159/283 (56%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +LI+ NLRLV+ + K+Y G
Sbjct: 105 KEIGRIPL------LTPEEEIELAKRMEQGDEEAKRRLIEANLRLVVSIAKRYV---GRG 155
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 156 MLFLDLIQEGNLGLIKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIP----- 210
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +L+ EL R PT EEI + + ISPE+ RE+MK ++ +SL + G
Sbjct: 211 VHMVETINKLVRVSRQLVQELGREPTPEEIAEKMGISPEKVREIMKVAQEPVSLETPIGE 270
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E++ + PA LLR L++VL SL P+E V+R RFGLD
Sbjct: 271 EEDSHLG-----DFIEDQEAQAPAEEASYALLREQLNEVLQSLTPREQKVLRLRFGLDDG 325
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 326 RARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 368
>gi|169883526|gb|ACA97858.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820]
Length = 416
Score = 150 bits (379), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>gi|425438187|ref|ZP_18818593.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9432]
gi|425444152|ref|ZP_18824209.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9443]
gi|425449157|ref|ZP_18829000.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 7941]
gi|425462821|ref|ZP_18842288.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9808]
gi|1710685|sp|P52322.1|RPOD_MICAE RecName: Full=RNA polymerase sigma factor rpoD1
gi|786173|dbj|BAA08853.1| sigma factor [Microcystis aeruginosa]
gi|1783286|dbj|BAA12850.1| principal sigma factor [Microcystis aeruginosa]
gi|389676661|emb|CCH94329.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9432]
gi|389730582|emb|CCI05187.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9443]
gi|389764330|emb|CCI09341.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 7941]
gi|389824092|emb|CCI27286.1| RNA polymerase sigma factor rpoD1 [Microcystis aeruginosa PCC 9808]
Length = 416
Score = 150 bits (379), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 148/256 (57%), Gaps = 9/256 (3%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+ K+ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F
Sbjct: 168 SAFKRRLYHGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKF 224
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ S T R+P L T I++ L E+
Sbjct: 225 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKILSQEM 279
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
+R PT+EEI + ++ E+ R + K+++ +SL + G ++ + + DG E++
Sbjct: 280 RRKPTEEEIATKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEV 339
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LLR L++VLD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L
Sbjct: 340 SKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKAL 399
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP R L++++
Sbjct: 400 RKLRHPNRNSILKEYI 415
>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 = 150 bits (379), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 96/293 (32%), Positives = 161/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q +KE L ++LG+EPT + A+A M+ +++ +E G
Sbjct: 22 PLLTHEEEILYAKRVQRFVALETLKESLTEELGQEPTIAQWAKAAKMTQKELRSAIEAGE 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
AA+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 AAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L E R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLSQEKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ ++P + RE ++ ++ LSL R G Q+ + + + G E+ + L+L LD
Sbjct: 194 ELELTPRQVREYLERARQPLSLDLRVGDNQDTELGDLLEDTGQSPEDYATHSSLQLDLDR 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
+++ L P++ V+ RFGL TL +I LNISRE VR+ E + L KL+
Sbjct: 254 LMEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIEREALAKLR 306
>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 = 150 bits (379), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 100/321 (31%), Positives = 177/321 (55%), Gaps = 11/321 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D V +K+M P+L E L + ++ + ++K L LGR P ++A
Sbjct: 76 TITDDAVGAFFKEMARYPLLKPDEEIELARQVRFLGEMEELKASLTDSLGRRPLLADIAH 135
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A ++S AQV++ L++GRAA+ ++I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 136 AFDLSEAQVRQNLQLGRAAKRRMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLN 192
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+P + ++ STY +WIR I R++ + T R+P I++ ++++A
Sbjct: 193 RATEKFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPI-----HIVEKLNKLKKAHR 247
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDG 434
+L EL+R PT+ E+ Q ++++P++ R + + + LSL+ R G ++ E + + D +
Sbjct: 248 DLRRELQRNPTEVELAQSLDMTPDQLRGLQQVRRRSLSLNHRVGKGEDTELMELLEDGNT 307
Query: 435 VENENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
E+Q +++R + VL + L +E +I R+GL TL E+ N+SRE V
Sbjct: 308 QSPESQISESMMRHEITSVLAEVLTEREKDIITLRYGLATGETHTLEEVGSMFNLSRERV 367
Query: 494 RKHEVKGLMKLKHPTRVDYLR 514
R+ + K + KL+ P LR
Sbjct: 368 RQIQTKAMRKLRRPQVASRLR 388
>gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101]
Length = 464
Score = 150 bits (379), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 154/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G P E A +M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 189 ELAAQFETDHGHYPDTKEWAALVDMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 248
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 249 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 305
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 306 PVHLYETI-----SRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 360
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 361 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 420
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 421 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 463
>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 = 150 bits (378), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 100/321 (31%), Positives = 175/321 (54%), Gaps = 11/321 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ S D V +K+M P+L E L ++ + +++ QL ++LGR P+ ELA+
Sbjct: 91 TMSDDSVGAFFKEMARYPLLKPDEEVELANQIRYLNEIEELRSQLTQELGRCPSKAELAD 150
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A ++ Q++ L R A+ K+I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 151 AVGLTERQLEHQLHRSRVAKRKMIRSNLRLVVSIAKRYIN---RGVPFLDLIQEGALGLN 207
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+P + ++ STY +WIR I R++ S T R+P I++ +++ A+
Sbjct: 208 RATEKFDPDKGYKFSTYAYWWIRQGITRTIANDSRTIRLP-----VHIVEKLNKLKGAQR 262
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDG 434
+L +L R PT+ E+ + + ++PE+ + + + + LSL+ R G ++ E ++ + D +
Sbjct: 263 DLKRKLNRNPTEAELAEALEVTPEQLQNLQQVHRRSLSLNYRVGKDEDTELVDLLEDAET 322
Query: 435 VENENQRQPALLRLALDDVLDS-LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
E+Q +LR + DVL + L +E +I R+GL TL E+ G N+SRE V
Sbjct: 323 RSPESQMSETMLRQEIWDVLGNVLTEREKDIISLRYGLSSNKPCTLEEVGGLFNLSRERV 382
Query: 494 RKHEVKGLMKLKHPTRVDYLR 514
R+ + K + KL+ P + L+
Sbjct: 383 RQIQSKAMRKLRRPQVAERLK 403
>gi|282895449|ref|ZP_06303586.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
gi|281199482|gb|EFA74345.1| sigE (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
Length = 327
Score = 150 bits (378), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 164/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+ D+V +++ P+L+ + K +Q M + V+ KE L K+LG EP+ E A
Sbjct: 16 TADMVRTYLREIGRVPLLNREQEIIYGKQVQQMMILVEAKEALAKELGYEPSLSEWAIYV 75
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N S +K + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 76 NQSENDLKHKISTGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLERG 132
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P ++ STY +WIR AI R++ T R+P I + +I++ + EL
Sbjct: 133 VEKFDPTMGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQREL 187
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R P+ EI + + + P + RE + ++ +SL R G Q+ + + + DG+
Sbjct: 188 AQKLGRSPSPTEIAKELELEPAQIREYLNIARQPISLDVRVGDNQDTELQEMLEDDGLSP 247
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR L+++L L P++ V+ RFGL+ + +L ++ LNISRE VR+ E
Sbjct: 248 EHYTTQEFLRHDLNNLLAELTPQQREVVTLRFGLEDGNEMSLAKVGDRLNISRERVRQLE 307
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 308 HQALTHLR 315
>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 = 150 bits (378), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 154/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G+ P E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 168 ELAAQFESDNGKLPDTKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 227
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 228 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 284
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 285 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 339
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 340 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 399
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 400 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 442
>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 = 149 bits (377), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/266 (35%), Positives = 150/266 (56%), Gaps = 10/266 (3%)
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
L T +S + ++ ++ G A+ +L++ NLRLV+ + K++ G F DL Q G
Sbjct: 197 LIGVTELSDEEARRVIQEGEYAKKRLVEANLRLVVSIAKRHV---GRGMLFLDLIQEGNM 253
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P + T VR IQR
Sbjct: 254 GLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVR--IQR 311
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITD 431
+L+ EL R P EEI + + I+PE+ RE++K S+ +SL S G + + I D
Sbjct: 312 ---QLVQELGREPLPEEISEKMGIAPEKVREILKISQEPVSLESPVGEEDDSHLGDFIPD 368
Query: 432 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISRE 491
D + +L+ LDDVL++L +E V+R RFGL+ RTL E+ ++RE
Sbjct: 369 ADALSPSEFASNEMLKKELDDVLETLTDREERVLRLRFGLEDGRTRTLEEVGKEFGVTRE 428
Query: 492 MVRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP+R L+ M
Sbjct: 429 RIRQIEAKALRKLRHPSRSRRLKDFM 454
>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 = 149 bits (377), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 169/310 (54%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
++S D+V ++ P+L+ + K +Q M ++ K++L L REP+ E A
Sbjct: 14 TFSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDELAIQLEREPSLTEWAN 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
MS ++ + ++ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 HVQMSEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + +++ P++ RE + S+ +SL R G Q+ ++ + + +G+
Sbjct: 186 ELSQQLGRSATPSEIAKALDLEPDQIREFLSMSRQPISLDVRVGDNQDTELSELLEDEGI 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+N L+R L D+L L P++ V+ RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDNYITQELMRQDLQDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L +L+
Sbjct: 306 LEHQALSQLR 315
>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 = 149 bits (377), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 97/284 (34%), Positives = 157/284 (55%), Gaps = 11/284 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G+ P E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 172 ELAAQFESDNGKLPDTKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 231
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 232 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 288
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 289 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 343
Query: 415 HSRHGVTQEEFINGITDVDGVENENQR-QPALLRLALDDVLDSLKPKESLVIRQRFGLDG 473
+ G ++ + + D +EN Q LLR L+ VL +L P+E V+R R+GLD
Sbjct: 344 ETPIGKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDD 402
Query: 474 KGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 403 GRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 446
>gi|443476204|ref|ZP_21066122.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena
biceps PCC 7429]
gi|443018873|gb|ELS33055.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena
biceps PCC 7429]
Length = 394
Score = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 96/273 (35%), Positives = 153/273 (56%), Gaps = 12/273 (4%)
Query: 249 PTDV---ELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
P DV E A M + +K L GR A++K+++ NLRLV+ + KKY G FQ
Sbjct: 129 PDDVREPEWAIKMGMPLGEFRKRLHSGRRAKDKMVQSNLRLVVSIAKKYMN---RGLSFQ 185
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T
Sbjct: 186 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-- 243
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
I++ L E+ R PT+EEI + ++ E+ R + K+++ +SL + G ++
Sbjct: 244 ---SRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDS 300
Query: 425 FINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
+ + +G ++Q +LLR L+ VL +L P+E V+R R+GLD +TL EI
Sbjct: 301 RLGDFIESEGETPDDQVAKSLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQ 360
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
N++RE +R+ E K L KL+HP R L++++
Sbjct: 361 IFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 393
>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 = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 96/293 (32%), Positives = 162/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E L K +Q ++K+ L K+L REP + E AEA +S ++++ + G+
Sbjct: 22 PLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPLEHEWAEAAKISEEELRRTMAAGK 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
AA+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 AAKEKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ Q
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQKQGRAATISELAQ 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ ++P + RE ++ ++ LSL R G Q+ + + + G E+ + L+L L+
Sbjct: 194 ELELTPRQVREYLERARQPLSLDLRVGDNQDTELGELLEDTGTSPEDYATHSSLQLDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ RFGL TL +I LNISRE VR+ E + L KL+
Sbjct: 254 LMSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALSKLR 306
>gi|16332132|ref|NP_442860.1| RNA polymerase sigma factor RpoD [Synechocystis sp. PCC 6803]
gi|383323875|ref|YP_005384729.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383327044|ref|YP_005387898.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383492928|ref|YP_005410605.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384438196|ref|YP_005652921.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451816284|ref|YP_007452736.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|47717353|sp|P74565.1|RPOD_SYNY3 RecName: Full=RNA polymerase sigma factor RpoD
gi|1653761|dbj|BAA18672.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339275229|dbj|BAK51716.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359273195|dbj|BAL30714.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359276365|dbj|BAL33883.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359279535|dbj|BAL37052.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|451782253|gb|AGF53222.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 425
Score = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 88/244 (36%), Positives = 144/244 (59%), Gaps = 9/244 (3%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K+++ NLRLV+ + KKY G FQDL Q G GLI A ++F+ ++ ++ STY
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 245
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ S T R+P L T I++ L E++R PT+EEI +
Sbjct: 246 TWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKTTKLLSQEMRRKPTEEEIAEK 300
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDV 453
+ ++ E+ R + K+++ +SL + G ++ + + DG E++ LLR L++V
Sbjct: 301 MEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVSKNLLREDLENV 360
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
LD+L P+E V+R R+GLD +TL EI N++RE +R+ E K L KL+HP R L
Sbjct: 361 LDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSIL 420
Query: 514 RQHM 517
++++
Sbjct: 421 KEYI 424
>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 = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 107/312 (34%), Positives = 176/312 (56%), Gaps = 11/312 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S D V +K+M P+L E L K +Q + Q++E+LQ +LGR+P ELA+
Sbjct: 63 SDDTVGAFFKEMARYPLLKPEEEVDLAKNVQFLVEIDQLQERLQANLGRKPAKAELAQQL 122
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
NM+ Q++ L GR A+ K+I+ NLRLV+ + K+Y G F DL Q G GL A
Sbjct: 123 NMTERQLENRLYRGRVAKRKMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLNRA 179
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+P++ ++ STY +WIR AI R++ + T R+P I++ ++++A+ EL
Sbjct: 180 TEKFDPEKGYKFSTYAYWWIRQAITRTIANDARTIRLPI-----HIVEKLNKLKKAQREL 234
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVE 436
L+R P +EE+ + + I+P R++++ + LSL+ R G ++ E ++ + D +
Sbjct: 235 KQGLQRNPNEEELAKALEITPSNLRQLLQLRRRSLSLNHRVGKGEDTELVDLLEDNELRL 294
Query: 437 NENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E Q ++R + +VL D L +E VI R+GL TL E+ G N+SRE VR+
Sbjct: 295 PEEQMSETMMRQEIWEVLSDVLTEREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQ 354
Query: 496 HEVKGLMKLKHP 507
+ K + KL+ P
Sbjct: 355 IQSKAMRKLRRP 366
>gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205]
Length = 470
Score = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 153/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G P E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 195 ELANQFEADNGHYPDTKEWATLVEMPLVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 254
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 255 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 311
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 312 PVHLYETI-----SRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 366
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 367 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 426
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 427 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 469
>gi|430762755|ref|YP_007218612.1| RNA polymerase sigma factor RpoD [Thioalkalivibrio nitratireducens
DSM 14787]
gi|430012379|gb|AGA35131.1| RNA polymerase sigma factor RpoD [Thioalkalivibrio nitratireducens
DSM 14787]
Length = 621
Score = 149 bits (377), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 158/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+E+ + N+S A++K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 352 LEIEKQANLSIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 408
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 409 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 463
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R T EE+ + + + ++ R+VMK SK +S+ + G ++
Sbjct: 464 IETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKIRKVMKISKEPISMETPIGDDED 523
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+E P A L A ++L +L P+E+ V+R RFG+D D
Sbjct: 524 SHLG-----DFIEDEKVMTPVESAARAKLSEATREILATLTPREAKVLRMRFGIDMNTDH 578
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR + LR +M
Sbjct: 579 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRAELLRTYM 618
>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 = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REPT E
Sbjct: 18 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMALLDAKEALVKKLRREPTMEEWTAK 77
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S A++ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 78 VNTSEAELNDLIRKGQRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTMGLER 134
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 135 GVEKFDPIRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKVQRE 189
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R P EI + + + P + RE + ++ +SL R G Q+ + + + DG+
Sbjct: 190 LAQTLGRSPNAVEIAEALELEPAQIREYLNLARQPVSLDVRVGDNQDTELQDLLEDDGIS 249
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
EN LR LD +L L P++ V+ RFGL + +L ++ LN+SRE VR+
Sbjct: 250 PENYMTQESLRQDLDTLLSELTPQQREVLNLRFGLQDGNELSLAKVGERLNLSRERVRQL 309
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 310 EHQALAHLR 318
>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 = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 98/308 (31%), Positives = 165/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S DLV K++ P+L+ E K +Q ++KE LQ LG EPT+ + A+A
Sbjct: 7 SNDLVRSYLKEIGRVPLLTHEEEILYAKRVQQQIKVEKIKESLQDKLGEEPTESQWADAA 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++ +++ ++ G AA+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 EITVEELRNIIQAGEAAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+ R T E+ + + ++P++ RE ++ S+ +SL R G + + + + G
Sbjct: 179 AQQKGRTATISELAEELELTPKQVREYLEKSRQPISLDVRVGDNNDTELGDMLEDTGASP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ + LR LD ++ L P++ VI RFGL TL +I LNISRE VR+ E
Sbjct: 239 EDYATYSSLRKDLDKLMTDLTPQQREVISLRFGLSDGKPLTLAKIGDCLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 299 REALAKLR 306
>gi|443323268|ref|ZP_21052276.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442787006|gb|ELR96731.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 328
Score = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 102/321 (31%), Positives = 169/321 (52%), Gaps = 11/321 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S D+V ++ P+L+ + K +Q M ++ KE+L K LGRE E A+
Sbjct: 16 SADMVRTYLHEIGRVPLLTPEQEISYGKQVQKMMSLIEAKEKLNKQLGREANKQEWAQYV 75
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
M +++K + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 76 QMDPEELEKTQQKGQRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERG 132
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + F+ STY +WIR AI R++ T R+P I + +I+R + EL
Sbjct: 133 VEKFDPTKGFKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKRTQREL 187
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R P+ EI + + + P + RE + ++ +SL R G Q+ ++ + + D V
Sbjct: 188 SQRLGRNPSPSEIARELELQPAQIREYLSVARQPISLDVRVGDNQDTELSELLEDDSVSP 247
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+ LLR L +LD L P++ VI RFGL+ + +L +I LN+SRE VR+ E
Sbjct: 248 DKYITQELLRQDLRMLLDELTPQQQQVISLRFGLEDGKEMSLAKIGKQLNLSRERVRQLE 307
Query: 498 VKGLMKLKHPTRVDYLRQHMV 518
+ L L+ R D + ++++
Sbjct: 308 HQALAHLRK--RRDNIEEYII 326
>gi|442804827|ref|YP_007372976.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
gi|442740677|gb|AGC68366.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
Length = 443
Score = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 94/257 (36%), Positives = 146/257 (56%), Gaps = 11/257 (4%)
Query: 264 QVKKCLEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++ K +E G + +L + NLRLV+ + K+Y G F DL Q G GLI A+++F
Sbjct: 194 ELAKRMEAGEEEPKKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKF 250
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL
Sbjct: 251 DYRKGFKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQEL 305
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQ 440
R PT EEI Q + +S E+ RE+MK S+ +SL + G ++ + I D D +
Sbjct: 306 GREPTPEEIAQEMGMSVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPDES 365
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LL+ L DVLD+L P+E V+R RFGLD RTL E+ N++RE +R+ E K
Sbjct: 366 AAFTLLKEQLMDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKA 425
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ ++
Sbjct: 426 LRKLRHPSRSKKLKDYL 442
>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 = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 95/279 (34%), Positives = 154/279 (55%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + + G P+ E A +M A+ ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 147 QFESENGHFPSVKEWAVLADMPLARFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 203
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 204 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 263
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 264 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 318
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+GLD +T
Sbjct: 319 GKEEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKT 378
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 379 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 417
>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 = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 154/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G+ P E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 175 ELAAQFESDNGKLPDTKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 234
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 235 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 291
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 292 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 346
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 347 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 406
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 407 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 449
>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 = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 162/304 (53%), Gaps = 22/304 (7%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIK 281
T LF+ Q +V+ +LQ+D+GREPT E + A M+ + ++ G+ A++KL+
Sbjct: 288 TTLFRFRQYTLKLEKVRAELQRDMGREPTRSEWSLAVGMNQTLFELRIKEGQCAKDKLVN 347
Query: 282 HNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHA 341
NLRLV+ ++K Y G DL Q G GLI ++F+P+ F+ STY +WIR A
Sbjct: 348 SNLRLVVSIVKNYQ---GRGMTLPDLIQRGSLGLIRGAEKFDPEMGFKFSTYATWWIRQA 404
Query: 342 IIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPER 400
+ RS+T S R+P I +V I ++++ + + R DEE+ V IS E+
Sbjct: 405 VTRSITDQSRIIRLP-----VHIYEVISRINKSRMMIAEDQGRQARDEEVATAVGISVEK 459
Query: 401 YREVMKASKPILSLHSRHGVTQE----EFI--NGITDVDG-VENENQRQPALLRLALDDV 453
++K+++ S+ G ++ E + G D + NE +L+ +D V
Sbjct: 460 LDFILKSARLPASMDQLIGRDKDLPLWEMVADKGFNSADDFLTNE------VLKQDIDGV 513
Query: 454 LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYL 513
L +L P E V+R RFGLD TL +I ++RE +R+ EV+ L KL+HPTR + L
Sbjct: 514 LQTLSPTEREVLRLRFGLDDAQSMTLKDIGIFFKVTRERIRQIEVRALRKLRHPTRRNIL 573
Query: 514 RQHM 517
+ H+
Sbjct: 574 QGHV 577
>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 = 149 bits (376), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 108/355 (30%), Positives = 180/355 (50%), Gaps = 11/355 (3%)
Query: 166 RKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLF 225
R EK VT S K V+E YS L L +L++TE L
Sbjct: 234 RTRAAEKTVTSVLSFKSGSSSRKKRNSVQEVDYSDPLRYLR-ATTNTSRLLTATEELELS 292
Query: 226 KLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLR 285
+ +Q + +++E+L + G EPT + A A ++ ++K L G ++K+IK N+R
Sbjct: 293 EGIQDLLKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDKMIKSNIR 352
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + K Y G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +
Sbjct: 353 LVISIAKNYQ---GAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKF 409
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
++ S T R+PF + ++ ++ A+ +LL E R P D+EI + +S +R V
Sbjct: 410 LSDQSRTIRLPFHM-----VEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAV 464
Query: 405 MKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESL 463
+ K SL + G+ Q + I+D + E+ ++ L+ VLDSL P+E
Sbjct: 465 LMTPKAPRSLEQKIGINQNLKPSEVISDPEAETCEDMLIKQFMKQDLEKVLDSLNPREKQ 524
Query: 464 VIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
VIR RFG++ +TL EI + +SRE +R+ E KLK+ R +L+Q+++
Sbjct: 525 VIRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFRKLKNKKRTKHLQQYVM 579
>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 = 149 bits (376), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 165/307 (53%), Gaps = 14/307 (4%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L++ E L +Q + +K L++++GR T E + A M + L+ GR
Sbjct: 276 LLTAREEVDLSHQIQDLLKLENIKSNLEREIGRNATIGEWSRAVGMEQNAFEARLKKGRF 335
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++K++ NLRLV+ + K Y G QDL Q G GL+ ++F+P + F+ STY
Sbjct: 336 AKDKMVNSNLRLVVSIAKNYQ---GRGMTLQDLIQEGSMGLVRGAEKFDPTKGFKFSTYA 392
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR A+ RS+ S T R+P L +V I +AK L+ E R +EE+ +
Sbjct: 393 HWWIRQAVTRSIADQSRTIRLPIHL-----YEVISRINKAKRMLVQEHGREARNEEVAEL 447
Query: 394 VNISPERYREVMKASKPILSLH---SRHGVTQEEFINGITDVDGVENENQRQPALLRLAL 450
V ++ E+ + V+K++K S+ + G T + TDVD E+ +Q L+R +
Sbjct: 448 VGLTVEKLKSVVKSAKAPGSMERPIGKDGDTTLGELVADTDVDSPEDAIVKQ--LMRQDI 505
Query: 451 DDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRV 510
+ VL +L P+E V+R RFGLD +TL EI ++RE +R+ E K + KL+ P+R
Sbjct: 506 EGVLRTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKVTRERIRQIEAKAMRKLRQPSRN 565
Query: 511 DYLRQHM 517
LR+++
Sbjct: 566 SILREYL 572
>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 = 149 bits (375), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 163/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M ++ KE L K L REP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVFGKQVQHMMTLLEAKEALAKKLRREPSLPEWAAD 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNQSETDVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPTPVEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQDMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTNQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>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 = 149 bits (375), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 162/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K LG EP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALSKKLGHEPSLTEWATH 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S +V + + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNQSENEVTQTVTQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPTPTEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|271968332|ref|YP_003342528.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like
protein [Streptosporangium roseum DSM 43021]
gi|270511507|gb|ACZ89785.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like
protein [Streptosporangium roseum DSM 43021]
Length = 561
Score = 149 bits (375), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 111/353 (31%), Positives = 187/353 (52%), Gaps = 28/353 (7%)
Query: 167 KNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFK 226
+NEDE ++ S D+ + V + D V K++ P+L++ + L K
Sbjct: 234 QNEDEVLIL------SDDDDDAPVPQVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAK 287
Query: 227 LMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRL 286
++ +F + EQL D + P DV A+++ E GR A+N L++ NLRL
Sbjct: 288 RIE-AGLFAE--EQLGTDGDKLPVDVR---------AELEWIAEDGRRAKNHLLEANLRL 335
Query: 287 VLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSM 346
V+ + K+Y G F DL Q G GLI A+++F+ + ++ STY +WIR AI R+M
Sbjct: 336 VVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAM 392
Query: 347 TVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVM 405
+ T R+P +++V ++ R + ++L +L R PT EE+ + ++++PE+ EV
Sbjct: 393 ADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEELARELDMTPEKVVEVQ 447
Query: 406 KASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLV 464
K + +SLH+ G + EF + I D + + + LL+ L VLD+L +E+ V
Sbjct: 448 KYGREPISLHTPLGEEGDSEFGDLIEDSEAIVPADAVSFTLLQEQLHSVLDTLSEREAGV 507
Query: 465 IRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+ RFGL +TL EI ++RE +R+ E K + KL+HP+R LR ++
Sbjct: 508 VSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYL 560
>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 = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 96/291 (32%), Positives = 158/291 (54%), Gaps = 24/291 (8%)
Query: 240 QLQKDLGREPTDVELAE------------ATNMSAA--QVKKCLEVGRAARNKLIKHNLR 285
++QK + EP + EL E A M A +++K L R A++++++ NLR
Sbjct: 398 RMQKKVALEPDNKELKEHLAELELRMWMTADEMGDAYQELRKWLREARRAKDEMVEANLR 457
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G F DL Q G GL+ A+++FE +R ++ STY +WIR AI RS
Sbjct: 458 LVISIAKKYTN---RGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIRQAITRS 514
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R + +L+ E R PT EEI + +++ ER R V
Sbjct: 515 IADQARTIRIP-----VHMIETINKLMRVQKQLVQEYGREPTPEEIAEEIHLPVERVRSV 569
Query: 405 MKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP-ALLRLALDDVLDSLKPKESL 463
+K ++ +SL + G + + + EN + + L+ + DVLD+L +E
Sbjct: 570 LKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKIKDVLDTLTDRERE 629
Query: 464 VIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLR 514
VI QRFGL RTL E+ +++RE +R+ E K L KL+HPTR+ ++
Sbjct: 630 VIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAKALRKLRHPTRISKIK 680
>gi|350560602|ref|ZP_08929442.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio
thiocyanoxidans ARh 4]
gi|349782870|gb|EGZ37153.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio
thiocyanoxidans ARh 4]
Length = 620
Score = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 158/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+E+ + N+S A++K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 351 LEIEKRANLSIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 407
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 408 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 462
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R T EE+ + + + ++ R+VMK SK +S+ + G ++
Sbjct: 463 IETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKIRKVMKISKEPISMETPIGDDED 522
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+E P A L A ++L +L P+E+ V+R RFG+D D
Sbjct: 523 SHLG-----DFIEDEKVMTPVESAARAKLSEATREILATLTPREAKVLRMRFGIDMNTDH 577
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR + LR +M
Sbjct: 578 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRAELLRSYM 617
>gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299]
gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299]
Length = 595
Score = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 103/324 (31%), Positives = 179/324 (55%), Gaps = 14/324 (4%)
Query: 200 TDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQK-DLGREPTDVELAEAT 258
TD + K + +L+ E L K +Q + V E+L++ + G+EPT A
Sbjct: 269 TDSMKTYLKDIGTVSLLTGAEEVELAKRIQDLMYLNSVCERLEEENGGKEPTRFMWAIEC 328
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N++ ++++ LE G+ A+N +I+ NLRLV+ + K+Y + FQDL Q G GLI
Sbjct: 329 NITEQELERRLEEGKRAKNAMIQANLRLVVSIAKRYANKSMS---FQDLIQEGCVGLIRG 385
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+ KR ++ STY +WIR A+ RS++ S T R+P L ++ + + + ++
Sbjct: 386 AEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHL-----FEIISRMSKVERQM 440
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV---DG 434
+ +L R PT EE+ + ++ E+ +++ KAS +SL + E + D D
Sbjct: 441 VLKLGRDPTHEELADAMEMTVEKIKQIKKASLVPISLSQTVNNSNGEDKRTVEDTLIDDY 500
Query: 435 VEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
E+ E + LL+ L++VL++L P+E V+R R+GLD +TL EI +++RE +
Sbjct: 501 TEHPEGETGKVLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERI 560
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L KL+ P+R LR+++
Sbjct: 561 RQIEAKALRKLRQPSRNGILREYL 584
>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 = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 95/283 (33%), Positives = 154/283 (54%), Gaps = 9/283 (3%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYF 295
++ Q + D G+ P E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 165 ELAAQFESDNGKLPETKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYM 224
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+
Sbjct: 225 N---RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRL 281
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P L T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL
Sbjct: 282 PVHLYETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISL 336
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + + D E LLR L+ VL +L P+E V+R R+GLD
Sbjct: 337 ETPIGKEEDSRLGDFIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDG 396
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 397 RMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 439
>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 = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 166/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQHLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI +++ P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELDLEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>gi|295394756|ref|ZP_06804971.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium
mcbrellneri ATCC 49030]
gi|294972352|gb|EFG48212.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium
mcbrellneri ATCC 49030]
Length = 473
Score = 148 bits (374), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 90/248 (36%), Positives = 144/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 233 GRIAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 289
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 290 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 344
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PER EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 345 AKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADSVSFTLLQEQ 404
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 405 LHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLRHPSR 464
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 465 SQVLRDYL 472
>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 = 148 bits (373), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 166/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
YS D+V ++ P+L+ + K +Q M ++ KE+L + +G+EP+ E A+
Sbjct: 15 YSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQTMMNLLEKKEELAQRVGKEPSIQEWAKE 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N+ ++K LE G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNIEEKALQKALEQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R T EI Q + I P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 187 LSQSLGRSATPAEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQGVS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LLR L +++ L P++ V+ RFGL+ + +L +I LNISRE VR+
Sbjct: 247 PDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L +L+
Sbjct: 307 EHQALAQLR 315
>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 = 148 bits (373), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 109/320 (34%), Positives = 176/320 (55%), Gaps = 11/320 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S +TD V K++ P+L+ + +L+Q M + + L L R+PTD+ELA
Sbjct: 3 SPTTDSVRSYLKEIGRYPLLTPDQEITNARLVQQMMAVEEQRSNLALQLNRQPTDLELAT 62
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ + A+++ ++ G+ A+ K++ NLRLV+ V KKY Q+++ F DL Q G GL
Sbjct: 63 SLGQNEAELQSVIQQGQKAKQKMVTANLRLVVSVAKKY-QNYSLD--FLDLLQEGALGLQ 119
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
I++F+P + ++LSTY +WI +I R++ S T R+P I + +I+R +
Sbjct: 120 RGIEKFDPNKGYKLSTYVYWWITQSITRAVADKSRTIRLPI-----HINEKLNKIRRVQQ 174
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
+L L R P EI + +N+SP + RE ++ SKP++SL R G E + I +DG+
Sbjct: 175 QLSQSLGRPPVVAEIAESLNLSPNQIREYLQISKPLVSLEKRVGDEGESELADILPMDGI 234
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ Q L+ L +L LKP++ V+ RFGL TL ++A LN+SRE +RK
Sbjct: 235 SLDEQITLESLQQDLAKLLALLKPRQREVLTLRFGLSDNQQLTLSQVAKRLNLSRETIRK 294
Query: 496 HEVKGLMKLK-HPTRV-DYL 513
E L L+ H ++ DYL
Sbjct: 295 TEHLALSILRSHQNKIKDYL 314
>gi|425447372|ref|ZP_18827361.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9443]
gi|389732078|emb|CCI03931.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9443]
Length = 328
Score = 148 bits (373), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEGLSKQLGREPQQLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVISLRFGLSDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>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 = 148 bits (373), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 169/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S+DLV K++ P+L+ + K +Q + +L+ L REP+ +E AEA
Sbjct: 7 SSDLVRTYLKEIGRVPLLTHEQEVVYGKQVQRFVALQAYRTKLEASLEREPSKLEWAEAA 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S ++ + ++ G A+ ++++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 GISVDELTQAMDAGDLAKRRMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ S T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPLKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R T E+ + V ++P++ R+ ++ S+ LSL R G Q+ + + + G
Sbjct: 179 SQKLGRAATVAELAEEVKLTPKQVRDYLEKSRSPLSLDLRIGDNQDTNLGDLLEDPGQSP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ +LLR LD ++ L P++ V+ RFGLD + TL +I L+ISRE VR+ E
Sbjct: 239 EDYATQSLLRKDLDRLMAELTPQQQRVLHLRFGLDDGKNMTLAKIGEMLSISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L +L+
Sbjct: 299 REALTRLR 306
>gi|83589488|ref|YP_429497.1| RNA polymerase sigma factor RpoD [Moorella thermoacetica ATCC
39073]
gi|83572402|gb|ABC18954.1| RNA polymerase, sigma 70 subunit, RpoD [Moorella thermoacetica ATCC
39073]
Length = 361
Score = 148 bits (373), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 101/283 (35%), Positives = 158/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 97 KEIGRVPL------LTPEEEIELAKRMEAGDEEAKRRLAEANLRLVVSIAKRYV---GRG 147
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P +
Sbjct: 148 MLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 207
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
T +R +QR +LL EL R PT EEI ++I ER RE+ K ++ +SL + G
Sbjct: 208 TINKLIR--VQR---QLLQELGREPTPEEIAHEMDIPVERVREIQKIAQEPVSLETPIGE 262
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+E+ + PA LLR L++VL+SL P+E V+R RFGLD
Sbjct: 263 EEDSHLG-----DFIEDEDAQAPAEAASFMLLREQLEEVLNSLTPREKRVLRLRFGLDDG 317
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 318 RARTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 360
>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 = 147 bits (372), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 94/293 (32%), Positives = 165/293 (56%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q + ++KE L+ LGREP+D + +EA +S Q+++ L G
Sbjct: 22 PLLTHEEEILYAKQVQRLIFLEKIKESLRSQLGREPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 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 = 147 bits (372), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 98/286 (34%), Positives = 156/286 (54%), Gaps = 15/286 (5%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAAQ-VKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
+K L++ LGREPT +E + A +S Q K L R A+ ++I NLRLV+ + K+Y
Sbjct: 119 HIKVFLKEKLGREPTALEWSAACKISDVQKFKTVLYNSRKAKERMIAANLRLVVSIAKRY 178
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G QDL Q G GLI A ++F+ ++ F+ STY +WI+ ++ R++ S T R
Sbjct: 179 SN---RGMSLQDLVQEGSLGLIRATEKFDSEKGFKFSTYATWWIKQSVSRAIADHSRTIR 235
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L EL R PT+EEI ++++ ++ R V+++++P LS
Sbjct: 236 LPVHLYDT-----LSAIKKTTRILTIELGRSPTEEEIACKMDVTVDKLRSVLQSAQPTLS 290
Query: 414 LHS---RHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
L G T + ++ + D + + ++LR L DV++SL +E VIR R+G
Sbjct: 291 LEKPIKNDGDTAQ--LSDFIEADQESPDEHVEKSMLRDDLRDVINSLSLRERDVIRMRYG 348
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
LD RTL EI +++RE VR+ E K + KL+ P R + H
Sbjct: 349 LDDGKIRTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRSSIFKDH 394
>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 = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 103/315 (32%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ KE + DL ++ELA
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLSADEEIELA--------- 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ + A+ +L + NLRLV+ + K+Y G +F DL Q G GLI A+++F+
Sbjct: 131 -KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLIKAVEKFDY 186
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
K+ ++ STY +WIR AI R++ + T R+P + T +R +QR+ LL +L R
Sbjct: 187 KKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQRS---LLQDLGR 241
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++ISP++ RE++K ++ +SL + G + + I D D +
Sbjct: 242 EPTPEEIAEEMDISPDKVREIIKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAA 301
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 302 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 361
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 362 KLRHPSRSKRLKDFL 376
>gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii]
gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii]
Length = 485
Score = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 95/289 (32%), Positives = 159/289 (55%), Gaps = 17/289 (5%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMS-AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
VK L++ L REPT E A +S + + L R A+ +++ NLRLV+ + K+Y
Sbjct: 165 HVKISLREKLQREPTSSEWTAACKVSDVKKFRAILHNARRAKERMVAANLRLVVSIAKRY 224
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G QDL Q G GLI A ++F+ ++ F+ STY +W++ A+ R++ S T R
Sbjct: 225 VN---RGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIR 281
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L E+ R PT+EEI + +++S E+ R V+++++P LS
Sbjct: 282 LPVHLYDTI-----SAIRKTTRTLNIEIGRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLS 336
Query: 414 LH----SRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
L + +Q ++ + D E + ++LR L++V++SL P+E V+R R+
Sbjct: 337 LERPLKNDDDASQ---LSDFIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRY 393
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GLD +TL EI +++RE VR+ E K + KL+ P R LR +++
Sbjct: 394 GLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRSSILRDYVL 442
>gi|406920079|gb|EKD58207.1| hypothetical protein ACD_57C00003G0002 [uncultured bacterium]
Length = 448
Score = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 106/342 (30%), Positives = 184/342 (53%), Gaps = 25/342 (7%)
Query: 189 IEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGRE 248
+ K+ + + S+D V + +++ +L++ + L + + K F + ++L K+LGR+
Sbjct: 119 LSKISLDKTVSSDPVRMYLREIGKVDLLTAKQEIELAQCAEAFK-FRRTDKRLAKELGRK 177
Query: 249 PTDVELAEATNMSAAQVKKCLEV--------GRAARNKLIKHNLRLVLFVIKKYFQDFAN 300
PT E+A + +K + G AA LI+ NLRLV+ + KKY
Sbjct: 178 PTLPEIAVEMGLDKKVIKAVEKTSKDWNDKQGEAAERMLIQANLRLVVSIAKKYM---GR 234
Query: 301 GPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLE 359
G F DL Q G GL+ A+++F+ +R F+ STY +WIR AI R++ S T R+P
Sbjct: 235 GLTFLDLIQEGNIGLMRAVEKFDWRRGFKFSTYATWWIRQAITRALADQSRTIRIP---- 290
Query: 360 STSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHG 419
+++ + +R + EL + +R PT EE+ + + I E+ +E++K S+ SL + G
Sbjct: 291 -VHMVETINKYKRIERELEQKYERPPTAEEVSKEMGIEIEKAQEILKISQDTTSLETPVG 349
Query: 420 VTQE----EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG 475
++ EFI + E+ +Q LL+ +++VLD+L P+E V+ RFGL
Sbjct: 350 KEEDTRLKEFIPDEVGLSPFESASQE---LLKGHINEVLDTLNPRERKVLELRFGLKDGR 406
Query: 476 DRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ + ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 407 SRTLEEVGRDFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 448
>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 = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/280 (34%), Positives = 155/280 (55%), Gaps = 11/280 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + G P + E A MS + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 189 QFEGRKGYYPDNKEWAALVEMSLIKFRRRLMLGRRAKAKMVQSNLRLVVSIAKKYMN--- 245
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 246 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 305
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 306 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 360
Query: 419 GVTQEEFINGITDVDGVEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + + D +EN E LLR L+ VL +L P+E V+R R+GLD +
Sbjct: 361 GKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMK 419
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 420 TLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 459
>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 = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 166/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M ++ KE L K L REPT E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIIYGKQVQQMMSLLEAKEALAKQLHREPTSDEWATQ 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+++AA++ + ++ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VDIAAAELPETIKRGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTMGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R P EI + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPNANEIAIALELEPAQIREYLNLARQPVSLDIRVGDNQDTELQDLLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
++ LR +D++L L P++ V+ RFGL + +L ++ LN+SRE VR+
Sbjct: 247 PDHFMTQEALRQDIDNLLAELTPQQRSVVSLRFGLVDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|254281823|ref|ZP_04956791.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma
proteobacterium NOR51-B]
gi|219678026|gb|EED34375.1| RNA polymerase, sigma 70 subunit, RpoD family [gamma
proteobacterium NOR51-B]
Length = 603
Score = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/316 (31%), Positives = 178/316 (56%), Gaps = 29/316 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV---KEQLQKDLGREPTDVELAEATNMSAAQVKKC---LE 270
S ++ W+ ++M+ ++ ++ K+++Q+ L R VE + ++ A++K+ +
Sbjct: 300 SESDSRWVSRVMRKKELGARISLHKDEIQR-LQRRIGAVE--DEIGLTVAEIKEINRRMS 356
Query: 271 VGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R
Sbjct: 357 MGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRR 413
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVP 385
++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P
Sbjct: 414 GYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREP 468
Query: 386 TDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGITDVDGVENENQR 441
T EE+ + + + ++ R+V+K +K +S+ + G ++ +FI +T V++ +
Sbjct: 469 TPEELGERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSSLGDFIEDVTIASPVDSATEE 528
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 529 G---LTEATTDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 585
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR DYLR +
Sbjct: 586 RKLRHPTRSDYLRSFL 601
>gi|289450258|ref|YP_003475183.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3
str. UPII9-5]
gi|289184805|gb|ADC91230.1| RNA polymerase sigma factor RpoD [Clostridiales genomosp. BVAB3
str. UPII9-5]
Length = 353
Score = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 93/250 (37%), Positives = 143/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E + A+++L + NLRLV+ + K+Y G +F DL Q G GLI A+D+F+ ++ F+
Sbjct: 111 EGSQEAKDRLCEANLRLVVSIAKRYV---GRGMQFLDLIQEGNLGLIKAVDKFDYEKGFK 167
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R++ + T R+P + T +R +QR +LL EL R P E
Sbjct: 168 FSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQELGREPEVE 222
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLR 447
E+ Q + ISPE+ RE+ K S+ +SL G ++ + I D D +Q LL+
Sbjct: 223 ELAQEMGISPEKVREIQKISQEPVSLEKPIGEEEDSHLGDFIPDDDAPSPADQAAFTLLK 282
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L ++L L P+E V+R RFGLD RTL E+ N++RE +R+ E K L K++HP
Sbjct: 283 EQLLEILSGLTPREEKVLRLRFGLDDGRSRTLEEVGREFNVTRERIRQIEAKALRKMRHP 342
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 343 SRSKKLKDYL 352
>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 = 147 bits (372), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 165/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S DLV +++ P+L+ + K +Q + + QV+E+L LG EP E A A
Sbjct: 7 SKDLVRAYLREIGRVPLLTHEQEILYGKQVQQLAIVQQVREELSDRLGHEPDLTEWATAA 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S A+++ + G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 KLSEAELQGVVNRGELAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R T E+ Q + ++P++ RE ++ S+ LSL R G Q+ + + +
Sbjct: 179 SQQLGRAATIGELAQELELTPKQVREYLERSRQPLSLDVRVGDNQDTELGELLEDTAASP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ A LR LD ++ L P++ V+ RFGL+ TL ++ LNISRE VR+ E
Sbjct: 239 EDFTSQASLRADLDRLMADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 299 REALSKLR 306
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 94/279 (33%), Positives = 153/279 (54%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + + G P+ E A +M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 147 QFESENGHFPSVKEWAVLADMPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 203
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 204 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 263
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 264 YETI-----SRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 318
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+GLD +T
Sbjct: 319 GKEEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKT 378
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 379 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 417
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 165/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+ D+V +++ P+LS + K +Q M KE+L ++L REPT E A+A
Sbjct: 16 TVDMVRTYLQEIGKVPLLSHEQEIVFGKQVQIMMSLYAQKEELAENLDREPTLEEWAQAA 75
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+ A++KK + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 76 EKTPAELKKLIHQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERG 132
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + F+ STY +WIR AI R++ + T R+P I + +I++ + EL
Sbjct: 133 VEKFDPTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQREL 187
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R P EI +++ P + RE ++ +SL + G Q+ ++ + + +G+
Sbjct: 188 SQKLGRSPNQSEIANALDLEPSQIREYFSIARQPISLDVKVGDNQDTELSELLEDEGLSP 247
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+ L+R L +LD L ++ V+R RFGLD + +L +I + ISRE VR+ E
Sbjct: 248 DKYITQELMRQDLHKLLDELTTQQQEVVRLRFGLDDGKELSLAKIGQRMGISRERVRQLE 307
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 308 QQALAHLR 315
>gi|425455107|ref|ZP_18834832.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9807]
gi|389804051|emb|CCI17083.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9807]
Length = 328
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEGLSKQLGREPQQLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>gi|406965492|gb|EKD91117.1| hypothetical protein ACD_30C00043G0003 [uncultured bacterium]
Length = 364
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 94/283 (33%), Positives = 156/283 (55%), Gaps = 22/283 (7%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQ---VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYF 295
Q +D+G+ P ++AAQ + K +E G + A+++LI NLRLV+ + KKY
Sbjct: 98 QYLRDIGKVPL---------LTAAQEIELAKNVEKGIQRAKHQLISANLRLVVSIAKKYV 148
Query: 296 QDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RV 354
G DL + G GL+ A+++++ +R F+ STY +WIR AI R++ + T R+
Sbjct: 149 ---GRGMSLLDLIEEGNIGLMRAVEKYDWRRGFKFSTYATWWIRQAITRAIADQARTIRI 205
Query: 355 PFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL 414
P +++ R + L+ EL R PT EE+ + + I P + RE++K S+ SL
Sbjct: 206 P-----VHMVETINRFNRTQRRLMQELGREPTPEEVAEALGIDPSKAREIVKVSQEPTSL 260
Query: 415 HSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G + + + G++ + Q LL+ LD+VL++L P+E V++ RFGL+
Sbjct: 261 ATPVGDEDDSQLGDFIEAPGLKPDEQATRELLKDHLDEVLNTLSPREKRVLQLRFGLEDG 320
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K + KLKHPTR LR ++
Sbjct: 321 KQRTLEEVGKEFGVTRERIRQIEAKAVRKLKHPTRAKKLRDYL 363
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 94/293 (32%), Positives = 165/293 (56%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q + ++KE L+ LGREP+D + +EA +S Q+++ L G
Sbjct: 22 PLLTHEEEILYAKQVQRLIFLEKIKESLRAKLGREPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|345462092|ref|YP_003652995.2| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM
43833]
Length = 572
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 171/306 (55%), Gaps = 22/306 (7%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L++ + L K ++ +F + EQL K+ + P DV+ A+++ E G+
Sbjct: 286 PLLNAEQEVELAKRIE-AGLFAE--EQLAKEGDKLPPDVK---------AELEWIAEDGK 333
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ STY
Sbjct: 334 RAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 390
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+ +
Sbjct: 391 ATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEELAR 445
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALD 451
++++PE+ EV K + +SLH+ G + EF + I D + V + LL+ L
Sbjct: 446 ELDMTPEKVIEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTLLQEQLH 505
Query: 452 DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVD 511
VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 506 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQ 565
Query: 512 YLRQHM 517
LR ++
Sbjct: 566 VLRDYL 571
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 166/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
YS D+V ++ P+L+ + K +Q M ++K+QL + G EP+D E A+A
Sbjct: 15 YSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQGTEPSDKEWAKA 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N+ ++KK +E G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNLKEPELKKTIEQGNRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R T EI + I P + RE + ++ +SL R G Q+ ++ + +
Sbjct: 187 LSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRVGDNQDTELSELLEDHEAS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LLR L ++++ L P++ V+ RFGL+ + +L +I LNISRE VR+
Sbjct: 247 PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L +L+
Sbjct: 307 EHQALAQLR 315
>gi|422302967|ref|ZP_16390325.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9806]
gi|425467050|ref|ZP_18846334.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9809]
gi|389792142|emb|CCI12123.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9806]
gi|389830277|emb|CCI27891.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9809]
Length = 328
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/322 (30%), Positives = 173/322 (53%), Gaps = 11/322 (3%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
+S D+V ++ P+L+ + K +Q M ++ KE+L LG EP+ E A
Sbjct: 15 FSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMTLLEKKEELASKLGHEPSLTEWANY 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ ++ + + G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VQLGEDELNRAIAQGNRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R T EI Q +++ P + RE + ++ +SL R G Q+ ++ + + +G+
Sbjct: 187 LAQQLGRSATPGEIAQALDLEPAQIREYLSMARQPVSLDVRVGDNQDTELSDLLEDEGIS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+N LLR L++++ L P++ V+ RFGL+ + +L +I LNISRE VR+
Sbjct: 247 PDNYITQELLRQDLNNLMAELTPQQREVLSLRFGLEDGKELSLAKIGQRLNISRERVRQL 306
Query: 497 EVKGLMKLKHPTRVDYLRQHMV 518
E + L +L+ R +R+++V
Sbjct: 307 EHQALAQLRR--RRSNVREYIV 326
>gi|425435006|ref|ZP_18815466.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9432]
gi|425452052|ref|ZP_18831870.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 7941]
gi|425458612|ref|ZP_18838100.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9808]
gi|440755453|ref|ZP_20934655.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
gi|389675298|emb|CCH95580.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9432]
gi|389766335|emb|CCI08019.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 7941]
gi|389826317|emb|CCI23267.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9808]
gi|440175659|gb|ELP55028.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
Length = 328
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQRLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>gi|427706077|ref|YP_007048454.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427358582|gb|AFY41304.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 327
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 160/309 (51%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M V+ KE L K L REP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVFGKQVQQMMTLVEAKEALAKKLHREPSLPEWANH 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
S VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VKQSETDVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQTLGRSPTPAEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+ +L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|166364164|ref|YP_001656437.1| RNA polymerase sigma factor [Microcystis aeruginosa NIES-843]
gi|166086537|dbj|BAG01245.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
Length = 328
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 97/293 (33%), Positives = 158/293 (53%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q M ++ KE L K LGREP +E A++ N+S ++ + L+ G
Sbjct: 31 PLLTHEQEIIYGKQVQRMMSLLETKEALSKQLGREPDRLEWADSVNLSENELDRALKTGD 90
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P + ++ STY
Sbjct: 91 RAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTY 147
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ + T R+P I + +I+R + EL +L R T EI
Sbjct: 148 AYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQRELAQKLGRSATPAEIAL 202
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ + P + RE + ++ +SL R G Q+ ++ + + GV + LLR L +
Sbjct: 203 ELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVSPDTFITQELLRQDLAN 262
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
+L L P++ VI RFGL + +L +I +NISRE VR+ E + L L+
Sbjct: 263 LLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLR 315
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 113/339 (33%), Positives = 186/339 (54%), Gaps = 36/339 (10%)
Query: 197 SYSTDLVSLD------WKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPT 250
+ STD V++D K++ +L++ E L Q M+ ++ EQ++ L E
Sbjct: 293 TASTDAVNIDDPVRMYLKEIGKVHLLTAEEE---VDLAQKMEKGLKADEQIEI-LREEIR 348
Query: 251 DVELAEATNMS-AAQVK---KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
+L+E M+ AQ+K VG A+ KL + NLRLV+ + K+Y G F D
Sbjct: 349 SGDLSEEDMMNLEAQIKILKNDSAVGERAKQKLAEANLRLVVSIAKRYV---GRGMLFLD 405
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P +++
Sbjct: 406 LIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPV-----HMVE 460
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
++ R +LL EL R P+ EEI + + +P+R RE++K S+ +SL + G ++
Sbjct: 461 TINKLIRVSRQLLQELGREPSPEEIAREMETTPDRVREILKISQEPVSLETPIGEEEDSH 520
Query: 426 INGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGL-DGKGDRT 478
+ D +++EN PA LL+ L++VLD+L +E V+ RFGL DG+G RT
Sbjct: 521 LG-----DFIQDENAPVPAEAATFTLLKEQLNEVLDTLTERERKVLILRFGLEDGRG-RT 574
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ N++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 575 LEEVGKEFNVTRERIRQIEAKALRKLRHPSRSRKLKDYL 613
>gi|425440995|ref|ZP_18821285.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9717]
gi|389718430|emb|CCH97613.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9717]
Length = 328
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D+V ++ P+L+ + K +Q M ++ KE L K LGREP +E A+
Sbjct: 14 TLNADMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQRLEWAD 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
+ N+S ++ + L+ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 SVNLSENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I+R +
Sbjct: 131 RGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 186 ELAQKLGRSATPAEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LLR L ++L L P++ VI RFGL + +L +I +NISRE VR+
Sbjct: 246 SPDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEHQALAHLR 315
>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 = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 95/293 (32%), Positives = 161/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q + + KE+L K LGREP+ E AE +S ++K+ LE G+
Sbjct: 23 PLLTHEQEILYGKQVQQSAILQEGKEKLAKRLGREPSYAEWAENAGVSLKELKQALEDGQ 82
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 83 TAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 139
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ T R+P I + +I++A+ L +L R T E+
Sbjct: 140 AYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRSLAQDLGRAATIAELAD 194
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ RE ++ ++ LSL R G Q+ + + + DG E+ + +R L+
Sbjct: 195 ELDLNPKQIREYLERARLPLSLDLRVGDNQDTELGDLLEDDGASPEDYALQSSMRSDLEV 254
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L ++ V+ RFGL+ TL +I LNISRE VR+ E + L KL+
Sbjct: 255 LMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQIEREALTKLR 307
>gi|398817952|ref|ZP_10576551.1| RNA polymerase sigma factor, sigma-70 family [Brevibacillus sp.
BC25]
gi|398028750|gb|EJL22253.1| RNA polymerase sigma factor, sigma-70 family [Brevibacillus sp.
BC25]
Length = 376
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D+ + +PP + K+ P+++++ K++GR P L+ + AQ
Sbjct: 90 FDYDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLAQ 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 --RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 185
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 186 RKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGR 240
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P EEI + ++++PE+ RE+MK ++ +SL + G + + I D D +E +
Sbjct: 241 EPMPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQDALEPSDAAA 300
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 301 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 360
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 361 KLRHPSRSKRLKDFL 375
>gi|119504971|ref|ZP_01627048.1| putative transcriptional regulator, Fis family protein [marine
gamma proteobacterium HTCC2080]
gi|119459257|gb|EAW40355.1| putative transcriptional regulator, Fis family protein [marine
gamma proteobacterium HTCC2080]
Length = 606
Score = 147 bits (371), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 93/277 (33%), Positives = 158/277 (57%), Gaps = 23/277 (8%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+ +AT +S A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 339 EVEQATGLSVAEIKEINRRMSMGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 395
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 396 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 450
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 451 ETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKVRKVLKIAKEPISMETPIGDDEDS 510
Query: 424 ---EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+FI +T V++ + L A DVL L +E+ V+R RFG+ D TL
Sbjct: 511 HLGDFIEDVTISSPVDSATEEG---LTEATQDVLAGLTAREAKVLRMRFGIGMNTDHTLE 567
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KL+HPTR DYLR +
Sbjct: 568 EVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFL 604
>gi|428214900|ref|YP_007088044.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
gi|428003281|gb|AFY84124.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoria acuminata PCC 6304]
Length = 334
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 100/310 (32%), Positives = 164/310 (52%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S STD + ++ P+L+ + K +Q M F++ KE L+K L REPT+ E AE
Sbjct: 21 SDSTDTIRSYLHEIGRVPLLTHEQEIVFGKQVQQMMAFLEAKETLEKKLKREPTEEEWAE 80
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A S +K +++GR ++ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 81 AVGHSVGDLKNLVKIGRRSKQKMIEANLRLVVAIAKKYQK---RNLEFLDLIQEGTLGLE 137
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 138 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKVQR 192
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL L R P+ EI + + + P + RE + ++ +SL R G Q+ + + +
Sbjct: 193 ELTQNLGRSPSPSEIGEALELEPAQIREYLLMARQPVSLDLRVGDNQDTELQDLLEDADA 252
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN LLR L+ +L L ++ VI RFGL + +L ++ L++SRE VR+
Sbjct: 253 SPENYITQELLREDLESLLAELTTQQRDVIILRFGLKDGRELSLAKVGEKLSLSRERVRQ 312
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 313 LEHQALAHLR 322
>gi|425469578|ref|ZP_18848501.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9701]
gi|389880547|emb|CCI38706.1| RNA polymerase sigma factor rpoD2 [Microcystis aeruginosa PCC 9701]
Length = 328
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 97/293 (33%), Positives = 158/293 (53%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q M ++ KE L K LGREP +E A++ N+S ++ + L+ G
Sbjct: 31 PLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLEWADSVNLSENELDRALKTGD 90
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P + ++ STY
Sbjct: 91 RAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTY 147
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ + T R+P I + +I+R + EL +L R T EI
Sbjct: 148 AYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQRELAQKLGRSATPAEIAL 202
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ + P + RE + ++ +SL R G Q+ ++ + + GV + LLR L +
Sbjct: 203 ELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVSPDTFITQELLRQDLAN 262
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
+L L P++ VI RFGL + +L +I +NISRE VR+ E + L L+
Sbjct: 263 LLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLR 315
>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 = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 102/311 (32%), Positives = 164/311 (52%), Gaps = 9/311 (2%)
Query: 196 YSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELA 255
YS + DLV ++ +LS + K +Q M V KE L K L REPT E A
Sbjct: 20 YSSTVDLVHTYLHEIGNILLLSHEQEIVFGKQVQQMIALVTAKENLAKQLQREPTLQEWA 79
Query: 256 EATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGL 315
E ++S ++K L G+ A+ K+I+ NLRLV+ V KKY + + F DL Q G GL
Sbjct: 80 ELMHLSDKALQKQLLAGQQAKQKMIEANLRLVVAVAKKYQKRNLD---FLDLIQEGTLGL 136
Query: 316 ITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAK 374
+++F+P R FR STY +WIR + R++ S T R+P + + +I+R +
Sbjct: 137 ERGVEKFDPTRGFRFSTYAYWWIRQGVTRAIAQQSRTIRLPI-----HMTEKLNKIKRTQ 191
Query: 375 LELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDG 434
EL +L R PT EI + +++ PE+ RE + ++ +SL +R G Q+ + I DG
Sbjct: 192 RELSQKLGRTPTSIEIAEAIDLQPEQVRECLLLARHPISLEARIGDEQDTELQNILQDDG 251
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
+ E+ +R ++ ++L L ++ ++ RFGL + +L +I + ISRE VR
Sbjct: 252 LLPESYAVRESIRESVQNILSKLPTQQREILTLRFGLADGNELSLAQIGQRMGISRERVR 311
Query: 495 KHEVKGLMKLK 505
+ E + L+
Sbjct: 312 QLEQQAFSFLR 322
>gi|399950016|gb|AFP65672.1| RNA-polymerase sigma factor [Chroomonas mesostigmatica CCMP1168]
Length = 485
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 95/289 (32%), Positives = 159/289 (55%), Gaps = 17/289 (5%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMS-AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
VK L++ L REPT E A +S + + L R A+ +++ NLRLV+ + K+Y
Sbjct: 168 HVKISLREKLQREPTSSEWTAACKVSDVKKFRAILHNARRAKERMVAANLRLVVSIAKRY 227
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G QDL Q G GLI A ++F+ ++ F+ STY +W++ A+ R++ S T R
Sbjct: 228 VN---RGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIR 284
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L E+ R PT+EEI + +++S E+ R V+++++P LS
Sbjct: 285 LPVHLYDTI-----SAIRKTTRTLNIEIGRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLS 339
Query: 414 LH----SRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
L + +Q ++ + D E + ++LR L++V++SL P+E V+R R+
Sbjct: 340 LERPLKNDDDASQ---LSDFIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRY 396
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GLD +TL EI +++RE VR+ E K + KL+ P R LR +++
Sbjct: 397 GLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRSSILRDYVL 445
>gi|83859451|ref|ZP_00952972.1| RNA polymerase sigma factor [Oceanicaulis sp. HTCC2633]
gi|83852898|gb|EAP90751.1| RNA polymerase sigma factor [Oceanicaulis alexandrii HTCC2633]
Length = 678
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 93/263 (35%), Positives = 147/263 (55%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 428 ATVQKGAREARVAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 484
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 485 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLHEI 539
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + +++ E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 540 GREPTPEELAEKLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDA 599
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
+ N R+ L VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 600 AIHSNLRETTTL------VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 653
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 654 QIEAKALRKLKHPSRSRKLRSFL 676
>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 = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 94/286 (32%), Positives = 156/286 (54%), Gaps = 14/286 (4%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ +L GR+PT + A A + ++K + G ++K+IK N+RLV+ + K Y
Sbjct: 292 ERLQTELTERCGRQPTFAQWASAAGVDQKSLRKRIHHGTLCKDKMIKSNIRLVISIAKNY 351
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTR 353
G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +S++ S R
Sbjct: 352 Q---GAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIR 408
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+PF + ++ ++ A+ +L E + P +EEI + +S +R V+ + KP S
Sbjct: 409 LPFHM-----VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRS 463
Query: 414 LHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
L + G+ Q + I D + V +E+ +R LD VLDSL +E VIR RFG++
Sbjct: 464 LDQKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGME 523
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
+TL EI + +SRE VR+ E KLK+ R ++L+Q++V
Sbjct: 524 DGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRSNHLQQYLV 569
>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 = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 161/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + + + L + LGREPT +E AEA +S +++++ + G
Sbjct: 23 PLLSHEEEILYGKQVQRLTALQEFNQTLAEALGREPTLLEWAEAKELSKSELQRIIREGE 82
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 83 RAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 139
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ T R+P I + +I++ + +L +L R T EI +
Sbjct: 140 AYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKVQRQLTQQLGRSATTGEIAE 194
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ ++P++ RE ++ ++ LSL R G Q+ + + + G E+ + +R L+
Sbjct: 195 ELGLTPKQIRECLERARLPLSLDLRVGDNQDTELGDLLEDTGASPEDYALQSSMRTDLES 254
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ RFGL+ TL +I +LNISRE VR+ E + L KL+
Sbjct: 255 IMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREALSKLR 307
>gi|90580773|ref|ZP_01236576.1| RNA polymerase sigma factor [Photobacterium angustum S14]
gi|90438041|gb|EAS63229.1| RNA polymerase sigma factor [Vibrio angustum S14]
Length = 616
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + W+ + + K + + + ++DL R + L E T +S ++K + +G
Sbjct: 312 NESSQDWIDEALNSGKPYAERLKAYEEDLRRSSLKLRMLEEETGLSIERIKDISRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLQLPMDAA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A +DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R D LR +
Sbjct: 599 RKLRHPSRSDVLRSFL 614
>gi|330448778|ref|ZP_08312425.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor
[Photobacterium leiognathi subsp. mandapamensis
svers.1.1.]
gi|328492969|dbj|GAA06922.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor
[Photobacterium leiognathi subsp. mandapamensis
svers.1.1.]
Length = 616
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA---- 274
W+ + + K + + + ++DL R + L E T +S ++K + +G A
Sbjct: 318 WIDEALNSGKPYAERLKTYEEDLRRSAIKLRMLEEETGLSIERIKDISRRMSIGEAKARR 377
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 378 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 434
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 435 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 489
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P LR
Sbjct: 490 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLQLPMDAATATNLR 544
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 545 AATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 604
Query: 508 TRVDYLRQHM 517
+R D LR +
Sbjct: 605 SRSDVLRSFL 614
>gi|335424683|ref|ZP_08553687.1| RNA polymerase, sigma 70 subunit, RpoD [Salinisphaera shabanensis
E1L3A]
gi|334888114|gb|EGM26420.1| RNA polymerase, sigma 70 subunit, RpoD [Salinisphaera shabanensis
E1L3A]
Length = 622
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 171/310 (55%), Gaps = 20/310 (6%)
Query: 219 TEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMS-AAQVKKCLEVGR 273
T WL KL++ + + +E+L + GR ++E N++ ++ + + +G
Sbjct: 320 TSEVWLDKLIRAKRRYSSTIAGRREELVRAQGR-IREIESENGLNVNHIKEINRKMSIGE 378
Query: 274 A----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 379 AKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 435
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R T E
Sbjct: 436 FSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREATPE 490
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLR 447
E+ + + + ++ R+V+K +K +S+ + G ++ + I DV+ V ++ LR
Sbjct: 491 ELAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDVNAVAPDDSASGESLR 550
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A + L SL P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 551 EATHNTLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 610
Query: 508 TRVDYLRQHM 517
+R +L+ +
Sbjct: 611 SRATFLKSFL 620
>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 = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 167/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+TDLV K++ P+L+ E L K +Q + + + +E L ++L R PT E A A
Sbjct: 6 NTDLVRTYLKEIGRVPLLTHEEEIVLGKQVQHLSLLEKRREALTEELDRTPTQAEWAAAV 65
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N+S Q+ + G A+ ++++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 66 NLSEGQLLTIVRAGDTAKRRMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 122
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ S T R+P I + +I++A+ +L
Sbjct: 123 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQL 177
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+ R T E+ + ++P++ R+ ++ ++ LSL R G Q+ ++ + + +G
Sbjct: 178 SQQYGRAATVMELAAELELTPKQVRDYLEKARQPLSLDLRVGDNQDTELSELLEDEGPSP 237
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E A LR LD ++ L P++ V+R RFGL TL +I L+ISRE VR+ E
Sbjct: 238 EEFATQAALRRDLDRLMGDLTPQQQQVLRLRFGLTDGQTLTLAKIGEMLSISRERVRQIE 297
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 298 REALTKLR 305
>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 = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 96/278 (34%), Positives = 154/278 (55%), Gaps = 10/278 (3%)
Query: 242 QKDLGREPTDVE-LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFAN 300
Q D E ++E A +M + K L GR A++K+++ NLRLV+ + KKY
Sbjct: 123 QHDCDLEDVNLEDWAVEMDMPLDKFKNRLHSGRRAKDKMVQSNLRLVVSIAKKYMN---R 179
Query: 301 GPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLE 359
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 180 GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLY 239
Query: 360 STSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHG 419
T I++ L E+ R P++EEI + ++ E+ R + K+++ +SL + G
Sbjct: 240 ETI-----SRIKKTTKLLSQEMGRKPSEEEIATRMEMTIEKLRFIAKSAQLPISLETPIG 294
Query: 420 VTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
++ + + DG ++Q LLR L+ VL +L P+E V+R R+GLD +TL
Sbjct: 295 KEEDSRLGDFIESDGETPDDQVAKNLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTL 354
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
EI N++RE +R+ E K L KL+HP R L++++
Sbjct: 355 EEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 392
>gi|410582688|ref|ZP_11319794.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter
subterraneus DSM 13965]
gi|410505508|gb|EKP95017.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter
subterraneus DSM 13965]
Length = 432
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 144/250 (57%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ KLI+ NLRLV+ + K+Y G F DL Q G GLI A ++F+ ++ F+ STY
Sbjct: 195 AKRKLIQANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYA 251
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T +R +QR +L+ EL R PT EEI +
Sbjct: 252 TWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLVQELGREPTPEEIAKE 306
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
+ I PE+ RE+MK ++ +SL + G ++ + D +E+E+ PA LLR
Sbjct: 307 MGIEPEKVREIMKIAQEPVSLETPIGEEEDSHLG-----DFIEDEDALAPAEAASQLLLR 361
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L+DVL +L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 362 EQLEDVLHTLTDREQKVLRLRFGLDDGRQRTLEEVGQIFGVTRERIRQIEAKALRKLRHP 421
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 422 SRSKKLKDYL 431
>gi|380302336|ref|ZP_09852029.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium squillarum
M-6-3]
Length = 458
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 89/256 (34%), Positives = 149/256 (58%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++ +E GRAA++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 210 ELAMIVEDGRAAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 266
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+ ++ STY +WIR AI R+M + T R+P +++V ++ R + ++L +L
Sbjct: 267 YSKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLG 321
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V +
Sbjct: 322 REPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAV 381
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K +
Sbjct: 382 SFTLLQEQLHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTM 441
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR ++
Sbjct: 442 SKLRHPSRSQVLRDYL 457
>gi|296093150|gb|ADG89102.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora
bispora DSM 43833]
Length = 555
Score = 147 bits (370), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 101/306 (33%), Positives = 171/306 (55%), Gaps = 22/306 (7%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L++ + L K ++ +F + EQL K+ + P DV+ A+++ E G+
Sbjct: 269 PLLNAEQEVELAKRIE-AGLFAE--EQLAKEGDKLPPDVK---------AELEWIAEDGK 316
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ STY
Sbjct: 317 RAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTY 373
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+ +
Sbjct: 374 ATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEELAR 428
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALD 451
++++PE+ EV K + +SLH+ G + EF + I D + V + LL+ L
Sbjct: 429 ELDMTPEKVIEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVSFTLLQEQLH 488
Query: 452 DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVD 511
VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 489 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQ 548
Query: 512 YLRQHM 517
LR ++
Sbjct: 549 VLRDYL 554
>gi|410866165|ref|YP_006980776.1| RNA polymerase sigma factor [Propionibacterium acidipropionici ATCC
4875]
gi|410822806|gb|AFV89421.1| RNA polymerase sigma factor [Propionibacterium acidipropionici ATCC
4875]
Length = 462
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 146/250 (58%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GRAA+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 220 EDGRAAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 276
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WI+ AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 277 FSTYATWWIKQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 331
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + + + LL+
Sbjct: 332 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVNFTLLQ 391
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L DVLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 392 EQLHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 451
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 452 SRSQVLRDYL 461
>gi|397670626|ref|YP_006512161.1| RNA polymerase sigma factor RpoD [Propionibacterium propionicum
F0230a]
gi|395142261|gb|AFN46368.1| RNA polymerase sigma factor RpoD [Propionibacterium propionicum
F0230a]
Length = 520
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 280 GRNAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 336
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WI+ AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 337 TYATWWIKQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 391
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 392 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVNFTLLQEQ 451
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+DVLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 452 LNDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 511
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 512 SQVLRDYL 519
>gi|54307643|ref|YP_128663.1| RNA polymerase sigma factor RpoD [Photobacterium profundum SS9]
gi|46912066|emb|CAG18861.1| putative DNA-directed RNA polymerase, sigmasubunit [Photobacterium
profundum SS9]
Length = 612
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVGRA---- 274
W+ + + K + + + ++DL R + + E T +S ++K + +G A
Sbjct: 314 WIDEALNSGKPYAERLKNYEEDLRRSSLKLRILEKETGLSIERIKDISRRMSIGEAKARR 373
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 374 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 431 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPIPEELAER 485
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P LR
Sbjct: 486 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDNTLQLPMDAATATNLR 540
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 541 AATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 600
Query: 508 TRVDYLRQHM 517
+R D LR +
Sbjct: 601 SRSDVLRSFL 610
>gi|409385423|ref|ZP_11238052.1| RNA polymerase sigma factor RpoD [Lactococcus raffinolactis 4877]
gi|399207153|emb|CCK18967.1| RNA polymerase sigma factor RpoD [Lactococcus raffinolactis 4877]
Length = 376
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 99/277 (35%), Positives = 153/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + E T ++ A V E G A+ L + NLRLV+ + K+Y G
Sbjct: 110 KEIGRFPL-LTFDEETRLAEAIVAGG-EEGEMAKQMLAEANLRLVVSIAKRYS---GRGM 164
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 165 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 224
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R IQR +LL +L R P+ EEI ++I PER RE++K ++ +SL + G
Sbjct: 225 INKLIR--IQR---QLLQDLGRDPSPEEISAEMDIKPERVREILKIAQEPVSLETPIGEE 279
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + +LR LD+V+D+L +E V+R RFGLD TL
Sbjct: 280 DDSHLGDFIEDDAIESPIDYTNRVMLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 339
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K L KL+HP R LR M
Sbjct: 340 DVGKQFKVTRERIRQIEAKALKKLRHPRRSKQLRDFM 376
>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 = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 102/315 (32%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ KE + DL ++ELA
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLSADEEIELA--------- 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ + A+ +L + NLRLV+ + K+Y G +F DL Q G GLI A+++F+
Sbjct: 131 -KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLIKAVEKFDY 186
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR+ LL +L R
Sbjct: 187 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQRS---LLQDLGR 241
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++ISP++ RE++K ++ +SL + G + + I D D +
Sbjct: 242 EPTPEEIAEEMDISPDKVREIIKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAA 301
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 302 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 361
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 362 KLRHPSRSKRLKDFL 376
>gi|452991307|emb|CCQ97365.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 374
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 94/250 (37%), Positives = 145/250 (58%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ KL + NLRLV+ + K+Y G F DL Q G GL+ A+++F+ ++ F+ STY
Sbjct: 137 AKKKLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLMKAVEKFDYEKGFKFSTYA 193
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T VR +QR +L+ EL R PT EEI +
Sbjct: 194 TWWIRQAITRAIADQARTIRIPVHMVETINKLVR--VQR---QLVQELGRDPTPEEIAKE 248
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
+N+ E+ RE+MK ++ +SL + G ++ + D +E++N PA +LR
Sbjct: 249 MNMEVEKVREIMKIAQEPVSLETPIGEEEDSHLG-----DFIEDDNALAPADAATYIMLR 303
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L DVLD+L P+E V+R RFGLD RTL E+ +++RE +R+ E K L KL+HP
Sbjct: 304 EQLIDVLDTLTPREQKVLRLRFGLDDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHP 363
Query: 508 TRVDYLRQHM 517
+R L+ +
Sbjct: 364 SRSKKLKDFL 373
>gi|433545473|ref|ZP_20501826.1| RNA polymerase sigma factor [Brevibacillus agri BAB-2500]
gi|432183128|gb|ELK40676.1| RNA polymerase sigma factor [Brevibacillus agri BAB-2500]
Length = 374
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D+ + +PP + K+ P+++++ K++GR P L+ + AQ
Sbjct: 88 FDFDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLAQ 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 --RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 183
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 184 RKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGR 238
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P EEI + ++++PE+ RE+MK ++ +SL + G + + I D D +E +
Sbjct: 239 EPMPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQDALEPSDAAA 298
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 299 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 358
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 359 KLRHPSRSKRLKDFL 373
>gi|406926592|gb|EKD62776.1| hypothetical protein ACD_52C00059G0002 [uncultured bacterium]
Length = 359
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 90/247 (36%), Positives = 142/247 (57%), Gaps = 10/247 (4%)
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A++KLI+ NLRLV+ + KKY G DL Q G +GLI A+++++ +R F+ ST
Sbjct: 120 RRAKDKLIESNLRLVVSIAKKYI---GRGLSLLDLIQEGNQGLIRAVEKYDWRRGFKFST 176
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI R++ + T R+P +++ ++ R +L+ EL R PT EEI
Sbjct: 177 YATWWIRQAITRAIADQARTIRIP-----VHMVETINKLYRTSRKLMQELGREPTPEEIA 231
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLAL 450
+ + ++ ER RE+ K S+ + SL + G E + I D + +Q LL+ L
Sbjct: 232 EEMELTEERVREIFKISQEVTSLETPVGDDGESVLGDFIPDESHLSPVDQASKQLLKDHL 291
Query: 451 DDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRV 510
D+VL +L +E+ V++ RFGLDG TL E+ ++RE +R+ E K L KLKHP+R
Sbjct: 292 DEVLSTLTEREAKVLKLRFGLDGSKQMTLEEVGKVFGVTRERIRQIEAKALRKLKHPSRR 351
Query: 511 DYLRQHM 517
L+ ++
Sbjct: 352 KKLQDYL 358
>gi|88704608|ref|ZP_01102321.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71]
gi|88700929|gb|EAQ98035.1| RNA polymerase sigma factor rpoD [Congregibacter litoralis KT71]
Length = 607
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 91/279 (32%), Positives = 157/279 (56%), Gaps = 27/279 (9%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ EAT ++ ++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 338 QIEEATGLTVTEIKEINRRMSMGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 394
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 395 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 449
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 450 ETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKVRKVLKIAKEPISMETPIGDDEDS 509
Query: 425 FINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+ D +E++ P L+ A DVL L +E+ V+R RFG+D D T
Sbjct: 510 HLG-----DFIEDQTIHSPIDSATGQGLQEATKDVLGGLTAREAKVLRMRFGIDMNTDHT 564
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KL+HPTR DYLR +
Sbjct: 565 LEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFL 603
>gi|262276866|ref|ZP_06054659.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114]
gi|262223969|gb|EEY74428.1| RNA polymerase sigma factor RpoD [alpha proteobacterium HIMB114]
Length = 613
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 169/314 (53%), Gaps = 37/314 (11%)
Query: 218 STEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA-------QVKKCLE 270
S E +WL + K+F +K++L +EL++ MS + ++KK
Sbjct: 321 SEEKSWLAFFTKEKKLFANLKDKL----------IELSDNIGMSISDFRILVNKIKKGER 370
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 371 ESRIAKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 427
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ +I R + +++ E R PT EE
Sbjct: 428 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTQRQMMSEFGREPTPEE 482
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP--ALLR 447
+ + + + E+ R+V+K +K +SL + G ++ + D +E+ N P A ++
Sbjct: 483 LSKKLAMPLEKVRKVLKIAKEPVSLETPVGDEEDSTLG-----DFIEDSNALIPVDAAVQ 537
Query: 448 LALDD----VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
AL + VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L K
Sbjct: 538 TALKNTTTKVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 597
Query: 504 LKHPTRVDYLRQHM 517
LKHP+R L+ +
Sbjct: 598 LKHPSRSRQLKSFL 611
>gi|226311661|ref|YP_002771555.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599]
gi|226094609|dbj|BAH43051.1| RNA polymerase sigma factor [Brevibacillus brevis NBRC 100599]
Length = 376
Score = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D+ + +PP + K+ P+++++ K++GR P L+ + AQ
Sbjct: 90 FDFDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLAQ 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 --RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 185
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 186 RKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGR 240
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P EEI + ++++PE+ RE+MK ++ +SL + G + + I D D +E +
Sbjct: 241 EPMPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQDALEPSDAAA 300
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 301 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 360
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 361 KLRHPSRSKRLKDFL 375
>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 = 146 bits (369), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 130 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 186
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 187 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 245
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 246 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 301
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 302 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 361
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 362 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 391
>gi|89075585|ref|ZP_01161990.1| RNA polymerase sigma factor [Photobacterium sp. SKA34]
gi|89048725|gb|EAR54297.1| RNA polymerase sigma factor [Photobacterium sp. SKA34]
Length = 616
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 171/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ ++ W+ + + K + + + ++DL R + L E T +S ++K + +G
Sbjct: 312 NESKQDWIDEALNSGKPYAERLKVYEEDLRRASIKLRMLEEETGLSIERIKDISRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLQLPMDAA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A +DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TATNLRAATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R D LR +
Sbjct: 599 RKLRHPSRSDVLRSFL 614
>gi|323359909|ref|YP_004226305.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Microbacterium testaceum StLB037]
gi|323276280|dbj|BAJ76425.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Microbacterium testaceum StLB037]
Length = 436
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 93/270 (34%), Positives = 154/270 (57%), Gaps = 18/270 (6%)
Query: 258 TNMSAAQVKKCLEV--------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
+NMSAA+ L + G+ A++ L+ NLRLV+ + K+Y G +F DL Q
Sbjct: 174 SNMSAAEKTSQLGLDLQWVARDGQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQ 230
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + F+ STY +WIR AI R+M + T R+P +++V
Sbjct: 231 EGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 285
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 286 KLARVQRQMLQDLGREPTPEELSRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 345
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + +L+ L+ +LDSL +E+ VIR RFGL +TL +I
Sbjct: 346 LIEDTEAVVPADAVGFTMLQRQLESLLDSLSEREAGVIRMRFGLGDGQPKTLDQIGDTFG 405
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 406 VTRERIRQIESKTMAKLRHPSRSQSLRDYL 435
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 147 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 203
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 204 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 262
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 263 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 318
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 319 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 378
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 379 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 408
>gi|425734704|ref|ZP_18853021.1| RNA polymerase principal sigma factor [Brevibacterium casei S18]
gi|425480640|gb|EKU47804.1| RNA polymerase principal sigma factor [Brevibacterium casei S18]
Length = 489
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 90/254 (35%), Positives = 146/254 (57%), Gaps = 10/254 (3%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K + GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 243 KWIIHDGRIAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYT 299
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R
Sbjct: 300 KGFKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGRE 354
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQP 443
P+ EE+ + ++++PER EV K + +SLH+ G + EF + I D + V +
Sbjct: 355 PSPEELAKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDSVSF 414
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LL+ L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K + K
Sbjct: 415 TLLQEQLHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAK 474
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R LR ++
Sbjct: 475 LRHPSRSQVLRDYL 488
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 147 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 203
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 204 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 262
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 263 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 318
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 319 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 378
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 379 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 408
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 130 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 186
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 187 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 245
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 246 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 301
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 302 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 361
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 362 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 391
>gi|262164053|ref|ZP_06031792.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223]
gi|262027581|gb|EEY46247.1| RNA polymerase sigma factor RpoD [Vibrio mimicus VM223]
Length = 595
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 169/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA---- 274
WL K++ K +VQ + + D+ R +++ E T++S ++K + +G A
Sbjct: 297 WLDKVLASDKPYVQKIREQEDDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARR 356
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 357 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 413
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 414 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 468
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 469 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 523
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 524 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 583
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 584 SRSEVLRSFL 593
>gi|258623542|ref|ZP_05718543.1| RNA polymerase sigma factor [Vibrio mimicus VM573]
gi|258623776|ref|ZP_05718733.1| RNA polymerase sigma factor [Vibrio mimicus VM603]
gi|262172395|ref|ZP_06040073.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451]
gi|424809496|ref|ZP_18234873.1| RNA polymerase sigma factor RpoD [Vibrio mimicus SX-4]
gi|449146528|ref|ZP_21777301.1| RNA polymerase sigma factor RpoD [Vibrio mimicus CAIM 602]
gi|258583899|gb|EEW08691.1| RNA polymerase sigma factor [Vibrio mimicus VM603]
gi|258584204|gb|EEW08952.1| RNA polymerase sigma factor [Vibrio mimicus VM573]
gi|261893471|gb|EEY39457.1| RNA polymerase sigma factor RpoD [Vibrio mimicus MB-451]
gi|342322984|gb|EGU18770.1| RNA polymerase sigma factor RpoD [Vibrio mimicus SX-4]
gi|449077760|gb|EMB48721.1| RNA polymerase sigma factor RpoD [Vibrio mimicus CAIM 602]
Length = 625
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 169/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA---- 274
WL K++ K +VQ + + D+ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYVQKVREQEDDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARR 386
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 387 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 443
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 444 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 498
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 499 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 553
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 554 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 613
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 614 SRSEVLRSFL 623
>gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12]
Length = 409
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 147 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 203
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 204 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 262
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 263 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 318
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 319 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 378
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 379 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 408
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 130 LAAATRKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 186
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR A+ R++ + T R+P + T +R
Sbjct: 187 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMVETINKLIR- 245
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 246 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 301
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 302 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 361
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 362 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 391
>gi|403237525|ref|ZP_10916111.1| RNA polymerase sigma factor RpoD [Bacillus sp. 10403023]
Length = 339
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 112/365 (30%), Positives = 192/365 (52%), Gaps = 43/365 (11%)
Query: 159 LDKRIELRKNEDEKVVTKTRKTDSKDEHE---KIEKLVREYSYSTDLVSLDWKKMKIPPV 215
LD+ E + +++ + + D+ D +E I++L +E + D + +PP
Sbjct: 11 LDEYYEFLGEQGIELIGEGEEHDADDTNEGDPNIQELSKEEEF-------DLNDLSVPPG 63
Query: 216 LSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVG-RA 274
+ K+ P+++++ K++GR V+L A + Q+ + +E G
Sbjct: 64 V---------KINDPVRMYL-------KEIGR----VDLLSADD--EIQLAERIEQGDEE 101
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++ F+ STY
Sbjct: 102 AKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYA 158
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T +R +QR +LL +L R PT EEI +
Sbjct: 159 TWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGREPTPEEIAED 213
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDD 452
++++PE+ RE++K ++ +SL + G + + I D D LL+ L+D
Sbjct: 214 MDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSEHAAYELLKEQLED 273
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R
Sbjct: 274 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 333
Query: 513 LRQHM 517
L+ +
Sbjct: 334 LKDFL 338
>gi|335041905|ref|ZP_08534932.1| DNA-directed RNA polymerase, sigma subunit [Methylophaga
aminisulfidivorans MP]
gi|333788519|gb|EGL54401.1| DNA-directed RNA polymerase, sigma subunit [Methylophaga
aminisulfidivorans MP]
Length = 614
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 90/275 (32%), Positives = 157/275 (57%), Gaps = 17/275 (6%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
E+AE+ MS +++K+ + + A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 343 AEIAESRGMSISEIKEISRQMSIAEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 399
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 400 LDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 454
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT +E+ + V++ ++ R+V+K SK +S+ + G ++
Sbjct: 455 IETINKLNRVARQMLQEMGREPTPDELAERVDMPEDKVRKVLKISKEPISMETPIGDDED 514
Query: 424 EFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 482
+ + DV+ + + LR A VL+ L +E+ V+R RFG+D D TL E+
Sbjct: 515 SHLGDFVEDVNVISPSDSAIIEGLREATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEV 574
Query: 483 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R D LR +
Sbjct: 575 GKQFDVTRERIRQIEAKALRKLRHPSRSDQLRSFL 609
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 95/324 (29%), Positives = 176/324 (54%), Gaps = 11/324 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+ + D V +K+M P+L + E L + ++ + + +++ ++L R PT +E+A
Sbjct: 75 TLADDAVGAFFKEMARYPLLKADEEIELARQVKFLADVEALSKKMGEELKRTPTRLEMAN 134
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A + S A + L+ R+A+ K+I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 135 ALHCSEADFQHRLQYARSAKRKMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLN 191
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A ++F+P + ++ STY +WIR I R++ + T R+P I++ ++++ +
Sbjct: 192 RAAEKFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPI-----HIVEKLNKLKKTQR 246
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDG 434
EL +L R PT+ E+ ++++PE+ R + + + LSL+ R G ++ E + + D
Sbjct: 247 ELRKQLNRTPTEAELAAELDLTPEQLRSLQQVRRKSLSLNHRVGKGEDTELMELLEDGST 306
Query: 435 VENENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
+ E++ +++R + DVL + L +E +I R+GL TL E+ G N+SRE V
Sbjct: 307 LSPESRMNESMMRQEISDVLTEVLTEREKDIISLRYGLTTGEPHTLEEVGGIFNLSRERV 366
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ + K + KL+ P L+ +
Sbjct: 367 RQIQTKAMRKLRRPQVASRLKNWL 390
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 98/297 (32%), Positives = 162/297 (54%), Gaps = 31/297 (10%)
Query: 239 EQLQKDLGREPTDV----ELAEATNMSA-------AQVKKCLEVGRAARNKLIKHNLRLV 287
E ++ LG+ + E+ E+T + A QV++ E +AA+ +LI+ NLRLV
Sbjct: 342 EDFERLLGKASESIASLREIEESTGVDANELMSIVQQVREGEEESKAAKMQLIEANLRLV 401
Query: 288 LFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT 347
+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R++
Sbjct: 402 VSIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIA 458
Query: 348 VSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMK 406
+ T R+P + ++ ++ R L+ EL R PT EEI +++ E+ R+V+K
Sbjct: 459 DQARTIRIPVHM-----IETINKLVRTSRNLVQELGREPTPEEIADKMDLPVEKVRKVLK 513
Query: 407 ASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALD------DVLDSLKPK 460
+K +SL + G ++ + D +E++N PA ++ + VL +L +
Sbjct: 514 IAKEPISLETPIGEEEDSSLG-----DFIEDKNTVSPAEAVISFNLKEQVRSVLHTLSAR 568
Query: 461 ESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ V++ RFG+D D TL E+ N++RE +R+ E K L KL+HPTR LR +
Sbjct: 569 EAEVLKLRFGIDTDSDHTLEEVGKKFNVTRERIRQIEAKALRKLRHPTRSKILRTFL 625
>gi|262401783|ref|ZP_06078349.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586]
gi|262352200|gb|EEZ01330.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC586]
Length = 627
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 170/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA---- 274
WL K++ K +VQ + ++D+ R +++ E T++S ++K + +G A
Sbjct: 329 WLDKVLASDKPYVQKVREQEEDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARR 388
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 389 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 445
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 446 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 500
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 501 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 555
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 556 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 615
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 616 SRSEVLRSFL 625
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/270 (35%), Positives = 155/270 (57%), Gaps = 14/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA AT ++ Q+++ LE G+ A+ KL++ NLRLV+ + K+Y G F DL Q
Sbjct: 147 LAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYV---GRGMLFLDLIQ 203
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P + T +R
Sbjct: 204 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 262
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
IQR +LL +L R P+ EEI + ++++P++ RE++K S+ +SL + G ++ +
Sbjct: 263 -IQR---QLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGD 318
Query: 429 -ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D D V + LL+ LD VL +L +E VI+ RFGL RTL E+
Sbjct: 319 FIEDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFG 378
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR ++
Sbjct: 379 VTRERIRQIESKTLSKLRHPSRSQKLRDYL 408
>gi|403384152|ref|ZP_10926209.1| RNA polymerase sigma factor RpoD [Kurthia sp. JC30]
Length = 375
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 109/341 (31%), Positives = 181/341 (53%), Gaps = 46/341 (13%)
Query: 184 DEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQK 243
D+ +E L++E + DL L +PP + K+ P+++++ K
Sbjct: 73 DKDSDLEPLLKEAEETFDLNDL-----SVPPGV---------KINDPVRMYL-------K 111
Query: 244 DLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPR 303
++GR V+L A A ++ + AR +L + NLRLV+ + K+Y G
Sbjct: 112 EIGR----VDLLSAAE-EIALAERIEQGDEEARKRLAEANLRLVVSIAKRYV---GRGML 163
Query: 304 FQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTS 362
F DL Q G GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P + T
Sbjct: 164 FLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 223
Query: 363 IMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ 422
+R +QR +LL +L R PT EEI + ++++PE+ RE++K ++ +SL + G
Sbjct: 224 NKLIR--VQR---QLLQDLGREPTPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEED 278
Query: 423 EEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+ + D +E+ + PA LL+ L+DVLD+L +E V+R RFGLD
Sbjct: 279 DSHLG-----DFIEDSEAQSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 333
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 334 RTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 374
>gi|300865041|ref|ZP_07109868.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506]
gi|300336978|emb|CBN55018.1| RNA polymerase sigma factor [Oscillatoria sp. PCC 6506]
Length = 334
Score = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 166/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STD V ++ +L+ + K +Q M ++ KE+L K+L REPT+VE A
Sbjct: 23 STDTVRTYLHEIGRVALLTREQEIIYGKQVQQMMQLLEAKEELAKELRREPTEVEWALQV 82
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S A++K+ + GR A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 83 QLSEAELKRLMHQGRRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLERG 139
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ + EL
Sbjct: 140 VEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPI-----HITEKLNKIKKVQREL 194
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R PT EI + + P + RE + ++ +SL R G Q+ + + + +
Sbjct: 195 AQQLGRSPTPAEIGSALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLEDESASP 254
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
++ LLR L++++ L P++ V+ RFGL+ + +L ++ L +SRE VR+ E
Sbjct: 255 DDYITGELLRQDLNNLMAELTPQQRDVLSLRFGLEDGHEMSLAKVGERLKLSRERVRQLE 314
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 315 HQALAHLR 322
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 162/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+LS + K +Q M ++ KE L+K++ EP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLSREQEIIYGKQVQQMMALLEAKEALRKEIDHEPSLSEWAAR 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S ++ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNQSETELNHLMVQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQTLGRSPTPTEIAKELELEPAQIREYLNMARQPVSLDVRVGENQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRHDLNNLLAELTPQQRQVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>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 = 146 bits (368), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 93/279 (33%), Positives = 152/279 (54%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + + G P+ E A M + ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 154 QFESENGHYPSKKEWAALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMN--- 210
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 211 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 270
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R P++EEI + + ++ E+ R + K+++ +SL +
Sbjct: 271 YETI-----SRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 325
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+GLD +T
Sbjct: 326 GKEEDSRLGDFIESDSENPELDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKT 385
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 386 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 424
>gi|258516189|ref|YP_003192411.1| RNA polymerase sigma factor RpoD [Desulfotomaculum acetoxidans DSM
771]
gi|257779894|gb|ACV63788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
acetoxidans DSM 771]
Length = 359
Score = 145 bits (367), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 97/283 (34%), Positives = 157/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P ++ ++ K +E+G A+ +L + NLRLV+ + K+Y G
Sbjct: 95 KEIGRVPL------LSSEEEVELAKRMEMGEEEAKRRLAEANLRLVVSIAKRYV---GRG 145
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P +
Sbjct: 146 MLFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 205
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
T ++ R +LL EL R P EEI + +NI+ ++ RE+MK ++ +SL + G
Sbjct: 206 TI-----NKLIRVSRQLLQELGREPMPEEIAKEMNITEDKVREIMKIAQEPVSLETPIGE 260
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+ + R PA LLR LDDVL +L +E V+R RFGLD
Sbjct: 261 EEDSHLG-----DFIEDHDARAPAEEASFTLLREQLDDVLKTLTDREQKVLRLRFGLDDG 315
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 316 RARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 358
>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 = 145 bits (367), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 96/275 (34%), Positives = 154/275 (56%), Gaps = 21/275 (7%)
Query: 250 TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
+ ELAE TN ++ + G A+ KL + NLRLV+ + K+Y G F DL Q
Sbjct: 128 AEAELAE-TNEMTPKIDAAIIRGENAKKKLAEANLRLVVSIAKRYV---GRGMLFLDLIQ 183
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T +R
Sbjct: 184 EGNMGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR- 242
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING 428
+QR +LL +L R P+ EEI + ++++PE+ RE++K ++ +SL + G + +
Sbjct: 243 -VQR---QLLQDLGREPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG- 297
Query: 429 ITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 482
D +E+ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+
Sbjct: 298 ----DFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 353
Query: 483 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R L+ +
Sbjct: 354 GKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 388
>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 = 145 bits (367), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 165/293 (56%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LGR+P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGRDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ ++ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERARQPLSLDLKVGDNQDTELGELLEDKGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|440509639|ref|YP_007347075.1| RNA polymerase sigma factor [Candidatus Blochmannia chromaiodes
str. 640]
gi|440453852|gb|AGC03344.1| RNA polymerase sigma factor [Candidatus Blochmannia chromaiodes
str. 640]
Length = 611
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 169/320 (52%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKV-----FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC--- 268
+ T TW F M+ +V E +Q L + ++ + T ++ QVK
Sbjct: 307 NQTNKTW-FNTALSMRTSWSEKLYKVDEDVQNSLSKLH---QIEKETGLTIEQVKDINRR 362
Query: 269 LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ +G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 363 MSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 419
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 420 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRVSRQMLQEIGH 474
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT EE+ + + +S ++ R+V+K SK +S+ + G ++ + D +E+ N P
Sbjct: 475 EPTPEELAERMLMSEDKIRKVLKISKEPISMETPVGDDEDSHLG-----DFIEDTNHDLP 529
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
LR A D+L L P+E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 530 LDSATSDNLRTATHDILSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 589
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 590 AKALRKLRHPSRSEILRSFL 609
>gi|399046975|ref|ZP_10739163.1| RNA polymerase sigma factor, sigma-70 family [Brevibacillus sp.
CF112]
gi|398055125|gb|EJL47217.1| RNA polymerase sigma factor, sigma-70 family [Brevibacillus sp.
CF112]
Length = 375
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 169/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D+ + +PP + K+ P+++++ K++GR P L+ + AQ
Sbjct: 89 FDFDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLAQ 129
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 --RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 185 RKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P EEI + ++++PE+ RE+MK ++ +SL + G + + I D D +E +
Sbjct: 240 EPMPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQDALEPSDAAA 299
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 300 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 359
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 360 KLRHPSRSKRLKDFL 374
>gi|260906542|ref|ZP_05914864.1| RNA polymerase principal sigma factor [Brevibacterium linens BL2]
Length = 473
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 90/254 (35%), Positives = 146/254 (57%), Gaps = 10/254 (3%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K + GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 227 KWIIHDGRIAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYT 283
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R
Sbjct: 284 KGFKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGRE 338
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQP 443
P+ EE+ + ++++PER EV K + +SLH+ G + EF + I D + V +
Sbjct: 339 PSPEELAKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDSVSF 398
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LL+ L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K + K
Sbjct: 399 TLLQEQLHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAK 458
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R LR ++
Sbjct: 459 LRHPSRSQVLRDYL 472
>gi|403668244|ref|ZP_10933520.1| RNA polymerase sigma factor RpoD [Kurthia sp. JC8E]
Length = 378
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 110/341 (32%), Positives = 182/341 (53%), Gaps = 46/341 (13%)
Query: 184 DEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQK 243
D+ +E L++E + DL L +PP + K+ P+++++ K
Sbjct: 76 DKDSDLEPLLKEAEETFDLNDL-----SVPPGV---------KINDPVRMYL-------K 114
Query: 244 DLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPR 303
++GR D+ AE A +++K AR +L + NLRLV+ + K+Y G
Sbjct: 115 EIGR--VDLLSAEQEISLAERIEKG---DDEARKRLAEANLRLVVSIAKRYV---GRGML 166
Query: 304 FQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTS 362
F DL Q G GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P + T
Sbjct: 167 FLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 226
Query: 363 IMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ 422
+R +QR +LL +L R PT EEI + ++++PE+ RE++K ++ +SL + G
Sbjct: 227 NKLIR--VQR---QLLQDLGREPTPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEED 281
Query: 423 EEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+ + D +E+ + PA LL+ L+DVLD+L +E V+R RFGLD
Sbjct: 282 DSHLG-----DFIEDSEAQSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 336
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 337 RTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 377
>gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa]
gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa]
Length = 564
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 165/306 (53%), Gaps = 10/306 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+LS+TE L + +Q + +++E+L++ G +PT + A A + ++K L
Sbjct: 266 LLSATEEVELSEGIQDLLKLERIEEELKERFGGKPTFAQWAAAARVDQITLRKRLNYAIL 325
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
++K+IK N+RLV+ + K Y G QDL Q G +GL+ +++F+ + F+ STY
Sbjct: 326 CKDKMIKSNIRLVISIAKNYQ---GAGMNLQDLVQEGCRGLVRGVEKFDASKGFKFSTYA 382
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR A+ RS++ S T R+PF + + ++ A+ + E R P D+E+ +
Sbjct: 383 HWWIRQAVRRSLSDQSRTIRLPFHMVDATY-----RVKEARKQFYSENGRHPDDKEVAEA 437
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT-DVDGVENENQRQPALLRLALDD 452
+S +R V+ K SL + G + ++ +T D + E+ ++ L+
Sbjct: 438 TGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMKEFMKKDLER 497
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL+SL P+E+ VIR RFG++ +TL EI + +SRE +R+ E+ KLK+ R
Sbjct: 498 VLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIELSAFRKLKNKNRTKQ 557
Query: 513 LRQHMV 518
LRQ++V
Sbjct: 558 LRQYLV 563
>gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta]
Length = 490
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 95/289 (32%), Positives = 159/289 (55%), Gaps = 17/289 (5%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMS-AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
VK L++ L REPT E A +S + + L R A+ +++ NLRLV+ + K+Y
Sbjct: 165 HVKISLREKLQREPTSSEWTAACKVSDVKKFRSILHNARRAKERMVAANLRLVVSIAKRY 224
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G QDL Q G GLI A ++F+ ++ F+ STY +W++ A+ R++ S T R
Sbjct: 225 VN---RGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIR 281
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L E+ R PT+EEI + +++S E+ R V+++++P LS
Sbjct: 282 LPVHLYDTI-----SAIRKTTRTLNIEIGRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLS 336
Query: 414 LH----SRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
L + +Q ++ + D E + ++LR L++V++SL P+E V+R R+
Sbjct: 337 LERPLKNDDDASQ---LSDFIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRY 393
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GLD +TL EI +++RE VR+ E K + KL+ P R LR +++
Sbjct: 394 GLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRSSILRDYVL 442
>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 = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 166/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
YS D+V ++ P+L+ + K +Q M ++K+QL + G EP+D E A+A
Sbjct: 15 YSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQGTEPSDKEWAKA 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N+ +++K +E G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNLKEPELQKTIEQGNRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R T EI + I P + RE + ++ +SL R G Q+ ++ + +
Sbjct: 187 LSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRVGDNQDTELSELLEDHEAS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LLR L ++++ L P++ V+ RFGL+ + +L +I LNISRE VR+
Sbjct: 247 PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L +L+
Sbjct: 307 EHQALAQLR 315
>gi|67924587|ref|ZP_00518002.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|67853561|gb|EAM48905.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
Length = 328
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 164/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
YS D+V ++ P+L+ + K +Q M F++ KE+L LG+EPT E ++
Sbjct: 15 YSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLGKEPTVKEWSKE 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + + LE G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 LEIEQKALNQALEQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ S T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R T EI Q + I P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 187 LSQTLGRSATPSEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQGVS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LLR L +++ L P++ V+ RFGL+ + +L +I +NISRE VR+
Sbjct: 247 PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L +L+
Sbjct: 307 EHQALAQLR 315
>gi|282900289|ref|ZP_06308240.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis
raciborskii CS-505]
gi|281194794|gb|EFA69740.1| sigE (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis
raciborskii CS-505]
Length = 327
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 96/308 (31%), Positives = 164/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+ D+V +++ P+L+ + K +Q M + ++VKE L K+LG EP+ E A
Sbjct: 16 TADMVRTYLREIGRVPLLNREQEIIYGKQVQQMMLLLEVKEALTKELGYEPSLSEWAIYV 75
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N S +K + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 76 NQSENDLKHKISTGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLERG 132
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P ++ STY +WIR AI R++ T R+P I + +I++ + EL
Sbjct: 133 VEKFDPTMGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQREL 187
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R P+ EI + + + P + RE + ++ +SL R G Q+ + + + G+
Sbjct: 188 AQKLGRSPSPTEIAKELELEPAQIREYLNIARQPISLDVRVGDNQDTELQEMLEDHGLSP 247
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR L+++L L P++ V+ RFGL+ + +L ++ LNISRE VR+ E
Sbjct: 248 EHYTTQEFLRHDLNNLLAELTPQQREVVILRFGLEDGNEMSLAKVGDRLNISRERVRQLE 307
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 308 HQALTHLR 315
>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 = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 95/289 (32%), Positives = 158/289 (54%), Gaps = 17/289 (5%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMSAA-QVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
VK L+ L REPT+ E A +S + + L R A+ +++ NLRLV+ + K+Y
Sbjct: 148 HVKISLRDKLRREPTNSEWTAACKVSDVRKFRSILHNARRAKERMVAANLRLVVSIAKRY 207
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G QDL Q G GLI A ++F+ ++ F+ STY +W++ A+ R++ S T R
Sbjct: 208 VN---RGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIR 264
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P L T I++ L E+ R PT+EEI + +++S E+ R V+++++P LS
Sbjct: 265 LPVHLYDTI-----SAIRKTTRNLNIEIGRSPTEEEIAKRMDMSVEKLRNVLQSAQPTLS 319
Query: 414 LH----SRHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRF 469
L + +Q ++ + D E + ++LR L++V++SL P+E V+R R+
Sbjct: 320 LERPLKNDDDTSQ---LSDFIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRY 376
Query: 470 GLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
GLD +TL EI +++RE VR+ E K + KL+ P R LR ++
Sbjct: 377 GLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKLRQPYRSSILRDYVA 425
>gi|357467593|ref|XP_003604081.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
gi|355493129|gb|AES74332.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
Length = 572
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 93/286 (32%), Positives = 152/286 (53%), Gaps = 14/286 (4%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ+DL G +PT + A + ++K L G + K+IK N+RLV+ V K Y
Sbjct: 294 EKLQEDLAEKCGGQPTFAQWATMAGVDQKTLRKRLNYGVFCKEKMIKSNIRLVISVAKNY 353
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
+G QDL Q G +GL+ ++++ + F+ STY +WI+ A+ +S++V S T R
Sbjct: 354 Q---GSGMSLQDLVQEGCRGLVRGAEKYDASKGFKFSTYAHWWIKQAVRKSLSVQSRTIR 410
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+PF + + +++ A+ +L E R P DEE+ + +S +R V+ K S
Sbjct: 411 LPFHMVGATY-----KVKEARKQLYSENGRQPDDEEVAEATGLSMKRLSAVLLTPKAPRS 465
Query: 414 LHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
L + G+ Q + + D + E Q ++ L+ VLDSL P+E VI+ RFG+D
Sbjct: 466 LEQKVGINQSLKLSEVLADPEAETAEEQLIKQFMKKDLEKVLDSLNPREKQVIKWRFGMD 525
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
+TL EI + +SRE +R+ E KLK+ R +L+Q+ V
Sbjct: 526 DGRMKTLQEIGEMMGVSRERIRQIESCAFRKLKNKKRAKHLQQYFV 571
>gi|150397423|ref|YP_001327890.1| RNA polymerase sigma factor RpoD [Sinorhizobium medicae WSM419]
gi|150028938|gb|ABR61055.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium medicae
WSM419]
Length = 684
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 163/300 (54%), Gaps = 29/300 (9%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 513 SIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRK 567
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSL 457
V+K +K +SL + G ++ + D +E++N P A LR VL SL
Sbjct: 568 VLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASL 622
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 623 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>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 = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 173/318 (54%), Gaps = 18/318 (5%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKE---QLQKDLGREPTDVE 253
S + D V +K+M P+L E +L +K +E +LQ+ LGR PT+ E
Sbjct: 48 SRNEDTVGAFFKEMARYPLLKPDEE---IQLAHSVKFLNDAEERRLELQEQLGRSPTNEE 104
Query: 254 LAEATNM-SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
A + + Q+ L GR A+ K+I+ NLRLV+ + K+Y G F DL Q G
Sbjct: 105 WASVLGLETVKQLNSALYKGRVAKRKMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGA 161
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GL A ++F+P + ++ STY +WIR AI R++ + T R+P I++ +++
Sbjct: 162 IGLNRAAEKFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPI-----HIVEKLNKLK 216
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITD 431
+A+ L L+R PT+ E+ Q ++I+ ++ ++++ + LSL+ R G ++ + + +
Sbjct: 217 KAQRTLKQTLQRNPTEAELAQELDITADQLHQLLQLRRQSLSLNHRVGKGEDTELVDLLE 276
Query: 432 VDGVENENQRQP-ALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
DG++ +R A++R L DVL D L +E VI R+GL + TL E+ G N+S
Sbjct: 277 DDGLQLPEERMSEAMMRQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGMFNLS 336
Query: 490 REMVRKHEVKGLMKLKHP 507
RE VR+ + K + KL+ P
Sbjct: 337 RERVRQIQSKAMRKLRRP 354
>gi|225025101|ref|ZP_03714293.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC
23834]
gi|224942062|gb|EEG23271.1| hypothetical protein EIKCOROL_01993 [Eikenella corrodens ATCC
23834]
Length = 648
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 98/331 (29%), Positives = 174/331 (52%), Gaps = 25/331 (7%)
Query: 194 REY---SYSTDLVSLDWKKMKIPP--VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGRE 248
R+Y ++ ++ L+W + +I V S + + +++ + ++ ++ Q
Sbjct: 329 RDYFINNFLPNITDLNWVEAEIGKNRVWSEALSRFQYAIIEKQNILIEQEQHAQ------ 382
Query: 249 PTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
+ +AE +S V E AA+ ++I+ NLRLV+ + KKY G +F DL
Sbjct: 383 ---ISIAELKEISKNMVANEKETA-AAKREMIQANLRLVISIAKKYTN---RGLQFLDLI 435
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVR 367
Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++
Sbjct: 436 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETI 490
Query: 368 GEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFIN 427
++ R + L E P ++ + + + ++ R++MK +K +S+ + G + +
Sbjct: 491 NKMNRISRQYLQETGEDPDAAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLG 550
Query: 428 G-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 486
I DV+ + + + LR A DVL+SL P+E+ V+R RFG+D D TL E+
Sbjct: 551 DFIEDVNNIAPADAAMYSSLREATKDVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQF 610
Query: 487 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HPTR D LR +
Sbjct: 611 DVTRERIRQIEAKALRKLRHPTRSDRLRSFL 641
>gi|227822807|ref|YP_002826779.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234]
gi|227341808|gb|ACP26026.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii NGR234]
Length = 684
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 163/300 (54%), Gaps = 29/300 (9%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 513 SIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRK 567
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSL 457
V+K +K +SL + G ++ + D +E++N P A LR VL SL
Sbjct: 568 VLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASL 622
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 623 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>gi|428300988|ref|YP_007139294.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428237532|gb|AFZ03322.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 327
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 163/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + V+ KE L K L REPT E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIIFGKQVQQMMILVEAKEALAKKLQREPTLEEWAIQ 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N A++ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNQPEAELNLTVHQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPTPAEIAKELELEPLQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ L++SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNELSLAKVGERLSLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>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 = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 96/308 (31%), Positives = 165/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S DLV +++ P+L+ + K +Q + +++E+L +L REPT E A A
Sbjct: 4 SKDLVRTYLREIGRVPLLTHEQEVIYGKQVQQLAAMNEIREKLAAELNREPTRAEWAAAA 63
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N+S +++ +E G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 64 NISEGELETIIENGERAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 120
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 121 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 175
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R T E+ + ++P + RE ++ ++ LSL R G Q+ + + + +
Sbjct: 176 SQRLGRAATINELAAELELTPAQVREYLERARQPLSLDVRVGDNQDTELGELLEDSSISP 235
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E +LLR L+ ++ L P++ V+ RFGL+ TL ++ LNISRE VR+ E
Sbjct: 236 EEFATQSLLRSDLERLMAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRERVRQIE 295
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 296 REALSKLR 303
>gi|390440883|ref|ZP_10229079.1| RNA polymerase sigma factor rpoD2 [Microcystis sp. T1-4]
gi|389835810|emb|CCI33205.1| RNA polymerase sigma factor rpoD2 [Microcystis sp. T1-4]
Length = 328
Score = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 96/293 (32%), Positives = 158/293 (53%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q M ++ KE L K LGREP ++ A++ N+S ++ + L+ G
Sbjct: 31 PLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLDWADSVNLSENELDRALKTGD 90
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P + ++ STY
Sbjct: 91 RAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTY 147
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ + T R+P I + +I+R + EL +L R T EI
Sbjct: 148 AYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQRELAQKLGRSATPAEIAL 202
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ + P + RE + ++ +SL R G Q+ ++ + + GV + LLR L +
Sbjct: 203 ELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVSPDTFITQELLRQDLAN 262
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
+L L P++ VI RFGL + +L +I +NISRE VR+ E + L L+
Sbjct: 263 LLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLR 315
>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 = 145 bits (367), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 96/308 (31%), Positives = 168/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S+DLV +++ P+L+ + K +Q + + K+ L LGR P+ E A+A+
Sbjct: 7 SSDLVRTYLREIGRVPLLTHEQEVVFGKQVQRLTLLNDTKDGLANRLGRTPSFEEWAQAS 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S+A++K+ + G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 QLSSAELKQAIAEGEYAKRKMVEANLRLVVSVAKKYTKRNVD---LLDLIQEGTIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R T E+ Q ++++P++ R+ ++ ++ LSL R G Q+ + + + G
Sbjct: 179 SQRLGRAATAAELAQELDLTPKQVRDYLEQARQPLSLDLRVGDNQDTELGELLEDTGTSP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E + LR L+ ++ L P++ V+ RFGL+ TL +I LNISRE VR+ E
Sbjct: 239 EEFALQSSLRTDLESLMADLTPQQRQVLTLRFGLEDGQALTLAKIGDQLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 299 REALSKLR 306
>gi|376003181|ref|ZP_09780996.1| group 2 RNA polymerase sigma factor sigB (RpoD family) [Arthrospira
sp. PCC 8005]
gi|375328506|emb|CCE16749.1| group 2 RNA polymerase sigma factor sigB (RpoD family) [Arthrospira
sp. PCC 8005]
Length = 332
Score = 145 bits (366), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 90/293 (30%), Positives = 162/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++++++L K+L R+PT E + +S +++ + + GR
Sbjct: 36 PLLTREEEIIYGKKVQQMMSLLEMRDELTKELDRDPTAAEWSAKAGLSESEMTEIMNRGR 95
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 96 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 152
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ +S T R+P I + +I++ + EL + R T EI +
Sbjct: 153 AYWWIRQAITRAIAQNSRTIRLPI-----HITEKLNKIKKVQRELFQQYGRNATPTEIAK 207
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+++ P + R+ + AS+ +SL R G Q+ + + + + +N LLR L D
Sbjct: 208 ALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADNYVTQQLLRQDLKD 267
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ R+GL+ + +L ++ ++NISRE VR+ E + L L+
Sbjct: 268 LMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLR 320
>gi|441505117|ref|ZP_20987107.1| RNA polymerase sigma factor RpoD [Photobacterium sp. AK15]
gi|441427218|gb|ELR64690.1| RNA polymerase sigma factor RpoD [Photobacterium sp. AK15]
Length = 613
Score = 145 bits (366), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 174/317 (54%), Gaps = 32/317 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
SST+ W+ + + K + + + +++L R + L E T +S ++K + +G
Sbjct: 311 SSTD--WIDEALNSGKPYAERLKNYEEELRRSVVKLRMLEEETGLSIERIKDISRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D ++N
Sbjct: 481 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLQLPMDAATSDN- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A ++VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRTATNEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R D LR +
Sbjct: 595 LRKLRHPSRSDVLRSFL 611
>gi|407791430|ref|ZP_11138514.1| RNA polymerase sigma factor RpoD [Gallaecimonas xiamenensis 3-C-1]
gi|407200221|gb|EKE70231.1| RNA polymerase sigma factor RpoD [Gallaecimonas xiamenensis 3-C-1]
Length = 613
Score = 145 bits (366), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 170/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA---- 274
WL ++ K + +V + L++DL R ++ + + T ++ +K + +G A
Sbjct: 315 WLDGHLEAGKGYSEVMKGLEEDLRRCVQKLQQIEQETGLTIESIKDINRRMSIGEAKARR 374
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 375 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 432 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEELAIR 486
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ PA L+
Sbjct: 487 MAMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDNTLELPADAATSESLK 541
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +VL SL P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 542 FATQEVLSSLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 601
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 602 SRSEILRSFL 611
>gi|398354471|ref|YP_006399935.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii USDA 257]
gi|390129797|gb|AFL53178.1| RNA polymerase sigma factor RpoD [Sinorhizobium fredii USDA 257]
Length = 684
Score = 145 bits (366), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 163/300 (54%), Gaps = 29/300 (9%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 513 SIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRK 567
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSL 457
V+K +K +SL + G ++ + D +E++N P A LR VL SL
Sbjct: 568 VLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASL 622
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 623 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>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 = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 98/285 (34%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P D E+A A M A A+ +L + NLRLV+ + K+Y
Sbjct: 111 KEIGRVPLLSADEEIALAKRMEAGD--------EEAQKELAEANLRLVVSIAKRYV---G 159
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 160 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 216
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL +L R P+ EEI + + IS ER RE+MK ++ +SL +
Sbjct: 217 --VHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVREIMKIAQEPVSLETPI 274
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G ++ + D +E+++ PA LL+ L++VLD+L +E V+R RFGLD
Sbjct: 275 GEEEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLDTLTEREERVLRLRFGLD 329
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ N ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 330 DGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRKLKDFL 374
>gi|261210089|ref|ZP_05924387.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341]
gi|260840854|gb|EEX67396.1| RNA polymerase sigma factor RpoD [Vibrio sp. RC341]
Length = 628
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 96/310 (30%), Positives = 169/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA---- 274
WL K++ K +VQ ++D+ R +++ E T++S ++K + +G A
Sbjct: 330 WLDKVLASDKPYVQKVRDQEEDIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARR 389
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 390 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 446
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 447 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 501
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 502 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 556
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 557 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 616
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 617 SRSEVLRSFL 626
>gi|317122932|ref|YP_004102935.1| RNA polymerase sigma-70 subunit RpoD [Thermaerobacter marianensis
DSM 12885]
gi|315592912|gb|ADU52208.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis
DSM 12885]
Length = 433
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 95/250 (38%), Positives = 143/250 (57%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ KLI+ NLRLV+ + K+Y G F DL Q G GLI A ++F+ ++ F+ STY
Sbjct: 196 AKRKLIQANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYA 252
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T +R +QR +L+ EL R PT EEI +
Sbjct: 253 TWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLVQELGREPTPEEIAKE 307
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
+ I PE+ RE+MK ++ +SL + G ++ + D +E+E+ PA LLR
Sbjct: 308 MGIEPEKVREIMKIAQEPVSLETPIGEEEDSHLG-----DFIEDEDALAPAEAASQLLLR 362
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L+DVL +L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 363 EQLEDVLHTLTDREQKVLRLRFGLDDGRQRTLEEVGQVFGVTRERIRQIEAKALRKLRHP 422
Query: 508 TRVDYLRQHM 517
+R L+ +
Sbjct: 423 SRSKKLKDFL 432
>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 = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 161/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIIFGKQVQQMMTLLDAKEDLAKKLHREPSLEEWANL 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ +VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VHQPETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R PT EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPTPAEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+ +L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|15966067|ref|NP_386420.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti 1021]
gi|334317072|ref|YP_004549691.1| RNA polymerase sigma 70 subunit RpoD [Sinorhizobium meliloti AK83]
gi|384530200|ref|YP_005714288.1| RNA polymerase sigma-70 subunit RpoD [Sinorhizobium meliloti
BL225C]
gi|384535319|ref|YP_005719404.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti SM11]
gi|407721374|ref|YP_006841036.1| RNA polymerase sigma factor rpoD [Sinorhizobium meliloti Rm41]
gi|418403199|ref|ZP_12976695.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti
CCNWSX0020]
gi|433614140|ref|YP_007190938.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium
meliloti GR4]
gi|7388096|sp|Q59753.1|RPOD_RHIME RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A;
AltName: Full=Major vegetative sigma factor
gi|1050336|gb|AAA88524.1| sigma factor [Sinorhizobium meliloti]
gi|15075337|emb|CAC46893.1| RNA polymerase sigma factor transcription regulation protein
[Sinorhizobium meliloti 1021]
gi|333812376|gb|AEG05045.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti
BL225C]
gi|334096066|gb|AEG54077.1| RNA polymerase, sigma 70 subunit, RpoD [Sinorhizobium meliloti
AK83]
gi|336032211|gb|AEH78143.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti SM11]
gi|359502883|gb|EHK75449.1| RNA polymerase sigma factor RpoD [Sinorhizobium meliloti
CCNWSX0020]
gi|407319606|emb|CCM68210.1| RNA polymerase sigma factor rpoD [Sinorhizobium meliloti Rm41]
gi|429552330|gb|AGA07339.1| RNA polymerase sigma factor, sigma-70 family [Sinorhizobium
meliloti GR4]
Length = 684
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 163/300 (54%), Gaps = 29/300 (9%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 513 SIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRK 567
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSL 457
V+K +K +SL + G ++ + D +E++N P A LR VL SL
Sbjct: 568 VLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASL 622
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 623 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>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 = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 166/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S TD V +++ P+L+ + K +Q Q K+ L ++LGR+PT E A+
Sbjct: 6 SSDTDSVRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKDILAEELGRDPTAAEWAQ 65
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A +S AQ+++ +E G A+ ++++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 66 AVGLSEAQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQ 122
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+
Sbjct: 123 RGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQR 177
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
+L +L R T E+ + ++P++ RE + ++ LSL R G Q+ + + + G
Sbjct: 178 QLAQQLGRAATAAELASELELTPKQIREYLDRARLPLSLDLRVGDNQDTELGDLLEDTGT 237
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E+ + LR LD ++ L ++ V+ RFGL+ TL +I LNISRE VR+
Sbjct: 238 TPEDFALQSSLRTDLDHLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQ 297
Query: 496 HEVKGLMKLK 505
E + L KL+
Sbjct: 298 IEREALTKLR 307
>gi|149910043|ref|ZP_01898691.1| RNA polymerase sigma factor [Moritella sp. PE36]
gi|149806911|gb|EDM66872.1| RNA polymerase sigma factor [Moritella sp. PE36]
Length = 609
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ T+ TW K Q + +++ D+ R ++L E T ++ +Q+K + +G
Sbjct: 305 NETDFTWFEKAQQSAAPYAPALQRIDFDVRRCINKLKLVENTTGLTISQIKNINRRMSIG 364
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 365 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 421
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R T
Sbjct: 422 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREATP 476
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + +R R+V+K +K +S+ + G ++ +FI T VD ++
Sbjct: 477 EELAERMMMPEDRIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLSLPVDAATKDS- 535
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
L+ A DDVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 536 -----LKGATDDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 590
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 591 LRKLRHPSRSEQLRSFL 607
>gi|90411915|ref|ZP_01219923.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK]
gi|90327173|gb|EAS43545.1| RNA polymerase sigma factor [Photobacterium profundum 3TCK]
Length = 612
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVGRA---- 274
W+ + + K + + + ++DL R + + E T +S ++K + +G A
Sbjct: 314 WIDEALNSGKPYAERLKIYEEDLRRSSLKLRILEKETGLSIERIKDISRRMSIGEAKARR 373
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 374 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 431 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPIPEELAER 485
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P LR
Sbjct: 486 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDNTLQLPMDAATATNLR 540
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 541 AATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 600
Query: 508 TRVDYLRQHM 517
+R D LR +
Sbjct: 601 SRSDVLRSFL 610
>gi|378826714|ref|YP_005189446.1| RNA polymerase sigma factor RpoD; Sigma-70 [Sinorhizobium fredii
HH103]
gi|365179766|emb|CCE96621.1| RNA polymerase sigma factor RpoD; Sigma-70 [Sinorhizobium fredii
HH103]
Length = 684
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 163/300 (54%), Gaps = 29/300 (9%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K F + + Q +D+ +E + LA T +S A+ ++ + + R A+ ++++ NL
Sbjct: 398 KEFARAENQTIRDIRQEIQN--LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANL 455
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 456 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 512
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 513 SIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRK 567
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSL 457
V+K +K +SL + G ++ + D +E++N P A LR VL SL
Sbjct: 568 VLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASL 622
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 623 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>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 = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 98/285 (34%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P D E+A A M A A+ +L + NLRLV+ + K+Y
Sbjct: 111 KEIGRVPLLSADEEIALAKRMEAGD--------EEAQKELAEANLRLVVSIAKRYV---G 159
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 160 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 216
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL +L R P+ EEI + + IS ER RE+MK ++ +SL +
Sbjct: 217 --VHMVETINKLIRVSRQLLQQLGREPSPEEIAEAMEISVERVREIMKIAQEPVSLETPI 274
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G ++ + D +E+++ PA LL+ L++VLD+L +E V+R RFGLD
Sbjct: 275 GEEEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLDTLTEREERVLRLRFGLD 329
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ N ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 330 DGRARTLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRKLKDFL 374
>gi|51891726|ref|YP_074417.1| RNA polymerase sigma factor RpoD [Symbiobacterium thermophilum IAM
14863]
gi|51855415|dbj|BAD39573.1| RNA polymerase major sigma factor [Symbiobacterium thermophilum IAM
14863]
Length = 388
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 99/282 (35%), Positives = 160/282 (56%), Gaps = 25/282 (8%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + AE M A +++K E A+ KL + NLRLV+ + K+Y G
Sbjct: 124 KEIGRVP--LLTAEEEIMYAERIEKGDE---EAKRKLAEANLRLVVSIAKRYV---GRGM 175
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P
Sbjct: 176 QFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIP-----V 230
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+++ ++ R +L+ EL R PT EEI ++I ER RE+ K ++ +SL + G
Sbjct: 231 HMVETINKLIRVTRQLVQELGREPTPEEIAAVMDIPVERVREIQKIAQEPVSLETPIGEE 290
Query: 422 QEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKG 475
++ + D +E+++ PA LL+ L++VL+SL P+E V+R RFGLD
Sbjct: 291 EDSHLG-----DFIEDQDAPAPAEAASFTLLKEQLEEVLESLTPREEKVLRLRFGLDDGR 345
Query: 476 DRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 346 ARTLEEVGQVFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 387
>gi|238897855|ref|YP_002923534.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella
defensa 5AT (Acyrthosiphon pisum)]
gi|229465612|gb|ACQ67386.1| RNA polymerase, sigma 70 (sigma D) factor [Candidatus Hamiltonella
defensa 5AT (Acyrthosiphon pisum)]
Length = 610
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 100/317 (31%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T ++WL + K +V+ + +D+ + ++ E T +S QVK + +G
Sbjct: 306 NETNNSWLKTALAMKKPWVEKLNDVLEDVQSNVQKLRQIEEETGLSIEQVKDINRRMAIG 365
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 366 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 422
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 423 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRVSRQMLQEMGREPAP 477
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + E+ R+V+K +K +S+ + G + +FI T +D +E+
Sbjct: 478 EELAERMLMPEEKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLDSATSES- 536
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LRLA +DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 537 -----LRLATNDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 591
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R D L+ +
Sbjct: 592 LRKLRHPSRSDVLKSFL 608
>gi|333374621|ref|ZP_08466461.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella kingae
ATCC 23330]
gi|332975259|gb|EGK12159.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella kingae
ATCC 23330]
Length = 654
Score = 145 bits (366), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 90/268 (33%), Positives = 149/268 (55%), Gaps = 11/268 (4%)
Query: 252 VELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
+ +AE ++S VK E AA+ K+I+ NLRLV+ + KKY G +F DL Q G
Sbjct: 390 ISIAELKDISKNMVKSEKETA-AAKQKMIQANLRLVISIAKKYTN---RGLQFLDLIQEG 445
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ ++
Sbjct: 446 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKM 500
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-I 429
R + L E P ++ + + + ++ R++MK +K +S+ + G + + I
Sbjct: 501 NRISRQYLQETGEEPDSAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFI 560
Query: 430 TDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
DV+ V + + LR D+L+SL P+E+ V+R RFG+D D TL E+ +++
Sbjct: 561 EDVNNVAPADAAMYSSLREVTSDILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 620
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RE +R+ E K L KL+HPTR D L+ +
Sbjct: 621 RERIRQIEAKALRKLRHPTRSDKLKSFL 648
>gi|381401702|ref|ZP_09926595.1| RNA polymerase sigma factor RpoD [Kingella kingae PYKK081]
gi|380833261|gb|EIC13136.1| RNA polymerase sigma factor RpoD [Kingella kingae PYKK081]
Length = 654
Score = 145 bits (366), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 90/268 (33%), Positives = 149/268 (55%), Gaps = 11/268 (4%)
Query: 252 VELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
+ +AE ++S VK E AA+ K+I+ NLRLV+ + KKY G +F DL Q G
Sbjct: 390 ISIAELKDISKNMVKSEKETA-AAKQKMIQANLRLVISIAKKYTN---RGLQFLDLIQEG 445
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ ++
Sbjct: 446 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKM 500
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-I 429
R + L E P ++ + + + ++ R++MK +K +S+ + G + + I
Sbjct: 501 NRISRQYLQETGEEPDSAKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFI 560
Query: 430 TDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
DV+ V + + LR D+L+SL P+E+ V+R RFG+D D TL E+ +++
Sbjct: 561 EDVNNVAPADAAMYSSLREVTSDILESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 620
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RE +R+ E K L KL+HPTR D L+ +
Sbjct: 621 RERIRQIEAKALRKLRHPTRSDKLKSFL 648
>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 = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S TD V +++ P+L+ + K +Q Q K L ++LGR+PT E A+
Sbjct: 6 SSDTDSVRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKNILAEELGRDPTAAEWAQ 65
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A +S AQ+++ +E G A+ ++++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 66 AVGLSEAQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQ 122
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+
Sbjct: 123 RGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQR 177
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
+L +L R T E+ + ++P++ RE + ++ LSL R G Q+ + + + G
Sbjct: 178 QLAQQLGRAATAAELASELELTPKQIREYLDRARLPLSLDLRVGDNQDTELGDLLEDTGT 237
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E+ + LR LD ++ L ++ V+ RFGL+ TL +I LNISRE VR+
Sbjct: 238 TPEDFALQSSLRTDLDQLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQ 297
Query: 496 HEVKGLMKLK 505
E + L KL+
Sbjct: 298 IEREALTKLR 307
>gi|434386344|ref|YP_007096955.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
gi|428017334|gb|AFY93428.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
Length = 326
Score = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 96/303 (31%), Positives = 161/303 (53%), Gaps = 11/303 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS + K +Q M + ++E L++ L R PT E A+A +S A++ + L GR
Sbjct: 30 PLLSHEQELCYGKQVQQMMLLKGIEESLEQTLNRPPTKTEWAQAATISEAELDRVLRQGR 89
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 90 QAKQKMIEANLRLVVAIAKKYQK---RNLEFLDLIQEGSLGLERGVEKFDPSRGYKFSTY 146
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ + R+P I + +I++ + EL +L R T EI
Sbjct: 147 AYWWIRQAITRAIAQQGRSIRLPI-----HITEKLNKIKKTQRELSQQLGRSATSAEIAV 201
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ + P + R+ + S+ +SL ++ G Q+ ++ + + G+ E LR L
Sbjct: 202 ALELEPAQIRDYLTLSRQPISLDAKVGDRQDTELSELLEDGGISPEKYTVQQSLRQELQS 261
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL--MKLKHPTRV 510
LD L ++ VI RFGL+G + +L ++ LN+SRE VR+ E + L + +H +
Sbjct: 262 TLDELTRQQREVINLRFGLEGGTELSLAKVGEILNLSRERVRQLEHQALSHFRRRHSSFR 321
Query: 511 DYL 513
DY+
Sbjct: 322 DYV 324
>gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545]
gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545]
Length = 587
Score = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 98/325 (30%), Positives = 178/325 (54%), Gaps = 15/325 (4%)
Query: 200 TDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-----EPTDVEL 254
TD + K + +L+ + L +Q + V+EQL+++ R E ++ +
Sbjct: 253 TDSMKTYLKDIGSVSLLTGEQEVELAMRIQDLVYLEGVREQLEEEAKRRKQTSEVSNFDW 312
Query: 255 AEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKG 314
A A N++ ++K+ L+ G+ A+N++I+ NLRLV+ + K+Y + FQDL Q G G
Sbjct: 313 AIAANVTERELKERLDAGKRAKNQMIQANLRLVVSIAKRYANKSMS---FQDLIQEGCVG 369
Query: 315 LITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRA 373
LI ++F+ KR ++ STY +WIR A+ RS++ S T R+P L ++ + +
Sbjct: 370 LIRGAEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHL-----FEIISRMSKV 424
Query: 374 KLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVD 433
+ +L+ + R PT EEI + ++++ E+ ++ KAS +SL + D
Sbjct: 425 ERQLVMKYGRDPTTEEIAEVMDMTVEKINQIQKASLVPISLSQSVNDDDSRTVEETLVDD 484
Query: 434 GVEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
E+ ++ LL+ L++VL++L P+E V+R R+G+D +TL EI +++RE
Sbjct: 485 HAEHPDDATGKVLLKEDLENVLNTLSPRERDVLRLRYGMDDGRVKTLEEIGNVFSVTRER 544
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+ P+R LR+++
Sbjct: 545 IRQIEAKALRKLRQPSRNGILREYL 569
>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 = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 93/286 (32%), Positives = 156/286 (54%), Gaps = 14/286 (4%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ +L GR+PT + A A + +++ + G ++K+IK N+RLV+ + K Y
Sbjct: 292 ERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNY 351
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTR 353
G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +S++ S R
Sbjct: 352 ---QGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIR 408
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+PF + ++ ++ A+ +L E + P +EEI + +S +R V+ + KP S
Sbjct: 409 LPFHM-----VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRS 463
Query: 414 LHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
L + G+ Q + I D + V +E+ +R LD VLDSL +E VIR RFG++
Sbjct: 464 LDQKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGME 523
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
+TL EI + +SRE VR+ E KLK+ R ++L+Q++V
Sbjct: 524 DGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>gi|387130959|ref|YP_006293849.1| RNA polymerase sigma factor RpoD [Methylophaga sp. JAM7]
gi|386272248|gb|AFJ03162.1| RNA polymerase sigma factor RpoD [Methylophaga sp. JAM7]
Length = 612
Score = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 93/268 (34%), Positives = 149/268 (55%), Gaps = 25/268 (9%)
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A MS A+ K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+
Sbjct: 359 ARQMSIAEAK-----ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLM 410
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++ ++ R
Sbjct: 411 KAVDKFEYQRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVAR 465
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
++L E+ R PT +E+ + V + ++ R+V+K SK +S+ + G ++ + D V
Sbjct: 466 QMLQEMGREPTPDELAERVEMPEDKVRKVLKISKEPISMETPIGDDEDSHLG-----DFV 520
Query: 436 ENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
E+ N PA LR A VL+ L +E+ V+R RFG+D D TL E+ +++
Sbjct: 521 EDVNVMSPADSAIIEGLREATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 580
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RE +R+ E K L KL+HP+R D LR +
Sbjct: 581 RERIRQIEAKALRKLRHPSRSDQLRSFL 608
>gi|374618894|ref|ZP_09691428.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium
HIMB55]
gi|374302121|gb|EHQ56305.1| RNA polymerase, sigma 70 subunit, RpoD [gamma proteobacterium
HIMB55]
Length = 601
Score = 145 bits (365), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 145/251 (57%), Gaps = 16/251 (6%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 360 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 416
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 417 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 471
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGITDVDGVENENQRQPALL 446
+ +++ ++ R+V+K +K +S+ + G ++ +FI +T VE+ + L
Sbjct: 472 GERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSSLGDFIEDVTIASPVESATEEG---L 528
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 529 TEATREVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 588
Query: 507 PTRVDYLRQHM 517
PTR DYLR +
Sbjct: 589 PTRSDYLRSFL 599
>gi|34499217|ref|NP_903432.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC
12472]
gi|34105068|gb|AAQ61424.1| RNA polymerase sigma factor RpoD [Chromobacterium violaceum ATCC
12472]
Length = 643
Score = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 91/265 (34%), Positives = 148/265 (55%), Gaps = 25/265 (9%)
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
MSA + K R A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+
Sbjct: 390 MSAGESK-----ARRAKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAV 441
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
D+FE +R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L
Sbjct: 442 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKMNRISRQIL 496
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
E R P E+ + + + E+ R++MK SK +S+ + G + + D +E++
Sbjct: 497 QESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDDDSHLG-----DFIEDQ 551
Query: 439 NQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
N P+ L+ A +VLD+L P+E+ V+R RFG+D D TL E+ +++RE
Sbjct: 552 NNLAPSDAAMYSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRER 611
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HPTR + LR +
Sbjct: 612 IRQIEAKALRKLRHPTRSERLRSFL 636
>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 = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 96/308 (31%), Positives = 168/308 (54%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STDLV +++ P+L+ + K +Q + Q KE L + LG EPT E A+A+
Sbjct: 19 STDLVRTYLQEIGRVPLLTHEQEILYGKQVQRLNALEQTKESLFEQLGYEPTLCEWAKAS 78
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++S A+++ C+ G+ A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 79 SLSEAELQSCIRAGQTAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRG 135
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ T R+P I + +I++A+ +L
Sbjct: 136 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQL 190
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R T E+ ++++P++ RE ++ ++ LSL R G Q+ + + + G
Sbjct: 191 SQTLGRAATISELATELDLTPKQVREYLEKARQPLSLDLRVGDNQDTELGELLEDSGPSP 250
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ + +++ L+ ++ L ++ V+ RFGL TL +I L ISRE VR+ E
Sbjct: 251 EDFATYSAMQVDLEKLMADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIE 310
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 311 REALSKLR 318
>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 = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 107/321 (33%), Positives = 168/321 (52%), Gaps = 11/321 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
STDLV + +++ P+L E L + +Q + +KE LQ LG E +D + AEA
Sbjct: 47 STDLVRVYLQEIGRVPLLGRDEEVELAQQVQKLMKLTALKESLQTSLGSEYSDEQWAEAA 106
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+ ++K+ + G A+ K+I+ NLRLV+ V KKY G DL Q G GL A
Sbjct: 107 KVGLFELKRQVLAGSRAKKKMIEANLRLVVSVAKKYQN---RGLELLDLVQEGTLGLERA 163
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR I R++ S T R+P I + I++ + +L
Sbjct: 164 VEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPV-----HITEKLNRIKKTQRKL 218
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R PT EI + + + P RE+M +SL +R G ++ + + + + V
Sbjct: 219 SQNLGRTPTISEIAEELEMEPAHVRELMSRVPRSVSLETRVGKDKDTELGELLEAEEVSP 278
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKH 496
E LR + ++LD L +E VI R+GL DG+ +L EI L++SRE VR+
Sbjct: 279 EESAVQESLRRDVKELLDDLTLRERDVITMRYGLLDGR-TYSLSEIGRALDLSRERVRQI 337
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+ P R +R ++
Sbjct: 338 ESKALQKLRQPRRRAKVRDYL 358
>gi|149191850|ref|ZP_01870086.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1]
gi|148834326|gb|EDL51327.1| RNA polymerase sigma factor RpoD [Vibrio shilonii AK1]
Length = 616
Score = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 171/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ + D+ R +++ E T++S +K + +G
Sbjct: 312 NESSEAWLDEVLASDKPYAEKIKRYEDDIRRSIQKLDIIEEETSLSVQNIKDISRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 484 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPVDSA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR+A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TMTSLRVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 599 RKLRHPSRSETLRSFL 614
>gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 344
Score = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 97/309 (31%), Positives = 168/309 (54%), Gaps = 13/309 (4%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLG--REPTDVELAEATNMSAAQVKKCLEVG 272
+L++ + L K +Q + ++E L ++ G E TD + A A ++ + + L G
Sbjct: 29 LLNAGQEVELAKRIQDLMHLESIRENLVEETGPGAEVTDYQWASAAGLNVQALHQRLRDG 88
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
++A+N++I+ NLRLV+ + KKY + FQDL Q G GLI ++F+ +R ++ ST
Sbjct: 89 KSAKNEMIQANLRLVVSIAKKYAN---SNMSFQDLIQEGCVGLIRGAEKFDFQRGYKFST 145
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR A+ RS++ S T R+P L ++ I + + + R PT EEI
Sbjct: 146 YAHWWIRQAVTRSISDQSRTIRLPVHL-----FEIISRISKMEQKFALHNGRNPTTEEIA 200
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQE--EFINGITDVDGVENENQRQPALLRLA 449
+++S E+ ++ KA++ +SL G + + + DV E +LL+
Sbjct: 201 AEMDMSAEKITQIKKAAQAPVSLAQTMGGDNKGRTVEDTLVDVTAEGPEKVSGKSLLKED 260
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L++VL++L P+E V+R R+GLD +TL EI +++RE +R+ E K L KLK P+R
Sbjct: 261 LENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRKLKQPSR 320
Query: 510 VDYLRQHMV 518
L+++
Sbjct: 321 NSILQEYFA 329
>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 = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 96/280 (34%), Positives = 154/280 (55%), Gaps = 11/280 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
+ + D G P E A +M + ++ L +GR A+ K++ NLRLV+ + KKY
Sbjct: 161 EFEADKGHFPDTKEWAAIFDMPLIKFRRRLMLGRRAKEKMVLSNLRLVVSIAKKYMN--- 217
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 218 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 277
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R PT+EEI + + ++ E+ R + K+++ +SL +
Sbjct: 278 YETI-----SRIKKTTKTLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 332
Query: 419 GVTQEEFINGITDVDGVEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + + D +EN E LLR L+ VL +L P+E V+R R+GLD +
Sbjct: 333 GKEEDSRLGDFIEAD-IENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMK 391
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 392 TLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 431
>gi|209527735|ref|ZP_03276230.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|209491813|gb|EDZ92173.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
Length = 332
Score = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 90/293 (30%), Positives = 161/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++++++L K+L +PT E + +S +++ + + GR
Sbjct: 36 PLLTREEEIIYGKKVQQMMSLLEMRDELTKELDHDPTAAEWSAKAGLSESEMTEIMNRGR 95
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 96 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 152
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ +S T R+P I + +I+R + EL + R T EI +
Sbjct: 153 AYWWIRQAITRAIAQNSRTIRLPI-----HITEKLNKIKRVQRELFQQYGRNATPTEIAK 207
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+++ P + R+ + AS+ +SL R G Q+ + + + + +N LLR L D
Sbjct: 208 ALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADNYVTQQLLRQDLKD 267
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ R+GL+ + +L ++ ++NISRE VR+ E + L L+
Sbjct: 268 LMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLR 320
>gi|405979920|ref|ZP_11038261.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
gi|404391295|gb|EJZ86359.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
Length = 619
Score = 145 bits (365), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 86/248 (34%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + ++ S
Sbjct: 379 GQLAKNHLLEANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFS 435
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 436 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 490
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + + + LL+
Sbjct: 491 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQ 550
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L +VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 551 LHNVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 610
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 611 SQVLRDYL 618
>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 = 144 bits (364), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 162/308 (52%), Gaps = 11/308 (3%)
Query: 200 TDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATN 259
TD+V ++ P+L+ + K +Q M +Q +E + + LGREP+ E AE
Sbjct: 17 TDMVRTYLHEIGRVPLLTHEQEIIYGKQVQQMMALLQKQEAIAETLGREPSQQEWAEGVQ 76
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
+S A + K L+ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL +
Sbjct: 77 LSEADLAKALKQGQRAKQKMIEANLRLVVSIAKKYQK---RNLEFLDLIQEGTLGLERGV 133
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+P R ++ STY +WIR AI R++ + T R+P I + +I+R + EL
Sbjct: 134 EKFDPSRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKRTQRELA 188
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
+ R T EI + + + E+ RE + S+ +SL R G Q+ + + + +G E
Sbjct: 189 QKFGRSATPAEIAEALELETEQIREYLTISRQPISLDVRVGDNQDTELQELLEDEGASPE 248
Query: 439 NQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKHE 497
LR LD ++ L ++ V+ RFGL DG G +L ++ LN+SRE VR+ E
Sbjct: 249 QYTAQESLRHDLDGLMSELTQQQRDVLNLRFGLVDGHG-LSLAKVGERLNLSRERVRQLE 307
Query: 498 VKGLMKLK 505
+ L L+
Sbjct: 308 RQALDHLR 315
>gi|325266676|ref|ZP_08133353.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella
denitrificans ATCC 33394]
gi|324982119|gb|EGC17754.1| DNA-directed RNA polymerase sigma subunit RpoD [Kingella
denitrificans ATCC 33394]
Length = 671
Score = 144 bits (364), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 91/268 (33%), Positives = 148/268 (55%), Gaps = 11/268 (4%)
Query: 252 VELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
+ +AE +S VK E AA+ K+I+ NLRLV+ + KKY G +F DL Q G
Sbjct: 407 ISIAELKEISKNMVKSEKETA-AAKQKMIQANLRLVISIAKKYTN---RGLQFLDLIQEG 462
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ ++
Sbjct: 463 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKM 517
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-I 429
R + L E P ++ + +++ ++ R++MK +K +S+ + G + + I
Sbjct: 518 NRISRQYLQETGEEPDSAKLAELMDMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFI 577
Query: 430 TDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
DV+ V + LR DVL+SL P+E+ V+R RFG+D D TL E+ +++
Sbjct: 578 EDVNNVAPAEAAMYSSLREVTADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVT 637
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RE +R+ E K L KL+HPTR D L+ +
Sbjct: 638 RERIRQIEAKALRKLRHPTRSDKLKSFL 665
>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 = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 164/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALVKKLRREPSLEEWAAH 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
S ++VK+ ++ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VKKSESEVKQTVQQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R P+ EI Q + + P + RE + ++ +SL + G Q+ + + + +G
Sbjct: 187 LAQKLGRSPSPAEIAQELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDEGQS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYMTQEFLRQDLNNLLSELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>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 = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAHSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|334339752|ref|YP_004544732.1| RNA polymerase sigma factor RpoD [Desulfotomaculum ruminis DSM
2154]
gi|334091106|gb|AEG59446.1| RNA polymerase sigma factor RpoD [Desulfotomaculum ruminis DSM
2154]
Length = 366
Score = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 101/287 (35%), Positives = 157/287 (54%), Gaps = 35/287 (12%)
Query: 243 KDLGREP-----TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K++GR P +VELAE M A A+ +L + NLRLV+ + K+Y
Sbjct: 102 KEIGRVPLLSPEEEVELAE--RMEAGD--------EEAKRRLAEANLRLVVSIAKRYV-- 149
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPF 356
G F DL Q G GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P
Sbjct: 150 -GRGMLFLDLIQEGNLGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIP- 207
Query: 357 GLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHS 416
+++ ++ R +LL EL R P+ EEI + + IS E+ RE+MK ++ +SL +
Sbjct: 208 ----VHMVETINKLIRVSRQLLQELGREPSPEEIAKEMEISGEKVREIMKIAQEPVSLET 263
Query: 417 RHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFG 470
G ++ + D +E+ + R PA LLR LD+VL +L +E V+R RFG
Sbjct: 264 PIGEEEDSHLG-----DFIEDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFG 318
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 319 LDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 365
>gi|444379032|ref|ZP_21178217.1| RNA polymerase sigma factor RpoD [Enterovibrio sp. AK16]
gi|443676869|gb|ELT83565.1| RNA polymerase sigma factor RpoD [Enterovibrio sp. AK16]
Length = 611
Score = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 173/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ + +WL + + K +V +Q ++DL R +++ E T +S +VK + +G
Sbjct: 307 NESSDSWLDEALASEKPYVDRLKQYEEDLRRCVQKLKIVEDETGLSVERVKDISRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D N
Sbjct: 479 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPMDSATMNN- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
L++A +VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LKMATSEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>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 = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 111/362 (30%), Positives = 186/362 (51%), Gaps = 44/362 (12%)
Query: 186 HEKIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPM 231
+KIE LV + Y+Y+ L +L + +++ V + W+ K+
Sbjct: 334 QQKIEYLVDQLYAYNRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWMEKVQGLD 393
Query: 232 KVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHN 283
K + + + R T+V E+A+AT MS ++ ++ + + R A+ ++++ N
Sbjct: 394 KKWAAFAAAEGRAVERIRTEVGEIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEAN 453
Query: 284 LRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAII 343
LRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI
Sbjct: 454 LRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 510
Query: 344 RSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYR 402
RS+ + T R+P +++ ++ R + L E R PT EE+ + +++ E+ R
Sbjct: 511 RSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR 565
Query: 403 EVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLD 455
+VMK +K +SL + G ++ +FI N I VD N L+ + VL
Sbjct: 566 KVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLA 619
Query: 456 SLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQ 515
SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R
Sbjct: 620 SLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRS 679
Query: 516 HM 517
+
Sbjct: 680 FL 681
>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 = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAHSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|416404726|ref|ZP_11687748.1| Cyanobacteria-specific RpoD-like sigma factor, type-3 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
gi|357261487|gb|EHJ10751.1| Cyanobacteria-specific RpoD-like sigma factor, type-3 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
Length = 328
Score = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 164/309 (53%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
YS D+V ++ P+L+ + K +Q M F++ KE+L LG+EPT E ++
Sbjct: 15 YSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLGKEPTVKEWSKE 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ + + LE G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 LEIEQKALNQALEQGERAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P + ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R T EI Q + I P + RE + ++ +SL R G Q+ ++ + + GV
Sbjct: 187 LSQTLGRSATPSEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQGVS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LLR L +++ L P++ V+ RFGL+ + +L +I +NISRE VR+
Sbjct: 247 PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L +L+
Sbjct: 307 EHQALAQLR 315
>gi|329898803|ref|ZP_08272472.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088]
gi|328920738|gb|EGG28203.1| RNA polymerase sigma factor RpoD [gamma proteobacterium IMCC3088]
Length = 600
Score = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 90/274 (32%), Positives = 158/274 (57%), Gaps = 23/274 (8%)
Query: 256 EATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLC 308
E + +S +++K+ + +G A A+ ++++ NLRLV+ + KKY G +F DL
Sbjct: 336 EKSGLSVSEIKEINRRMSMGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLI 392
Query: 309 QAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVR 367
Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 393 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETI 447
Query: 368 GEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE---- 423
++ R ++L E+ R PT EE+ + +++ ++ R+V+K +K +S+ + G ++
Sbjct: 448 NKLNRISRQMLQEMGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG 507
Query: 424 EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIA 483
+FI +T V++ + L+ A +VL L +E+ V+R RFG+D D TL E+
Sbjct: 508 DFIEDVTIASPVDSATGQG---LQEATTEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVG 564
Query: 484 GNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HPTR DYLR +
Sbjct: 565 KQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFL 598
>gi|121997892|ref|YP_001002679.1| RpoD family RNA polymerase sigma factor [Halorhodospira halophila
SL1]
gi|121589297|gb|ABM61877.1| RNA polymerase, sigma 70 subunit, RpoD [Halorhodospira halophila
SL1]
Length = 602
Score = 144 bits (364), Expect = 8e-32, Method: Compositional matrix adjust.
Identities = 90/280 (32%), Positives = 156/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+A+ +S A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 335 EIADKNGLSVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 391
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 392 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 446
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
+ ++ R ++L E+ R T EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 447 ETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDS 506
Query: 425 FINGITD-------VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ + VD +E LR ++ +VL L P+E+ V+R RFG+D D
Sbjct: 507 HLGDFIEDTSVTSPVDSATSEG------LRESVREVLSGLTPREAKVLRMRFGIDMNTDH 560
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR D LR +
Sbjct: 561 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDGLRSFL 600
>gi|163802687|ref|ZP_02196578.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4]
gi|159173575|gb|EDP58395.1| RNA polymerase sigma factor RpoD [Vibrio sp. AND4]
Length = 620
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 173/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ ++D+ R T +++ E T+++ +K + +G
Sbjct: 316 NESSEAWLDEILASDKPYAEKIKRSEEDIRRSITKLKMIEEETSLNVQNIKDISRRMSIG 375
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 376 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 432
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 433 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 487
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 488 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 542
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 543 TATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 602
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 603 RKLRHPSRSETLRSFL 618
>gi|329940007|ref|ZP_08289289.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045]
gi|329300833|gb|EGG44729.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045]
Length = 512
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 251 LASADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 306
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 307 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 361
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 362 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 421
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 422 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 481
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 482 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 511
>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 = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 96/294 (32%), Positives = 161/294 (54%), Gaps = 11/294 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q + + + +L K LG EPT+ + AE N+S AQ++ L G+
Sbjct: 35 PLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSVAQLQHILHQGQ 94
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 95 LAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 151
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ T R+P I + +I++A+ +L +L R T E+
Sbjct: 152 AYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQLAQQLGRAATMNELAA 206
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALD 451
++++P++ RE ++ S+ LSL R G Q+ E ++ + D +E + LR L+
Sbjct: 207 ELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDTSNSPDEFALNSS-LRSDLE 265
Query: 452 DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L ++ V+ RFGLD TL +I LNISRE VR+ E + L KL+
Sbjct: 266 SLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
>gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana]
Length = 574
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 93/286 (32%), Positives = 156/286 (54%), Gaps = 14/286 (4%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ +L GR+PT + A A + +++ + G ++K+IK N+RLV+ + K Y
Sbjct: 294 ERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNY 353
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTR 353
G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +S++ S R
Sbjct: 354 ---QGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIR 410
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+PF + ++ ++ A+ +L E + P +EEI + +S +R V+ + KP S
Sbjct: 411 LPFHM-----VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRS 465
Query: 414 LHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
L + G+ Q + I D + V +E+ +R LD VLDSL +E VIR RFG++
Sbjct: 466 LDRKIGMNQNLKPSEVIADPEAVTSEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGME 525
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
+TL EI + +SRE VR+ E KLK+ R ++L+Q++V
Sbjct: 526 DGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 571
>gi|415885546|ref|ZP_11547474.1| RNA polymerase sigma factor RpoD [Bacillus methanolicus MGA3]
gi|387591215|gb|EIJ83534.1| RNA polymerase sigma factor RpoD [Bacillus methanolicus MGA3]
Length = 375
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 168/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ KE + DL ++ELA
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLSAEEEIELA--------- 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 -KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++++PE+ RE++K ++ +SL + G + + I D D +
Sbjct: 240 EPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAA 299
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 300 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 359
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 360 KLRHPSRSKRLKDFL 374
>gi|452992460|emb|CCQ96087.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 384
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 166/316 (52%), Gaps = 33/316 (10%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + IPP + K+ P+++++ K++GR P T +
Sbjct: 98 FDLNDLSIPPGI---------KINDPVRMYL-------KEIGRVPL------LTADEEIE 135
Query: 265 VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K +E G AA+ +L + NLRLV+ + K+Y G F DL Q G GL+ A+D+F+
Sbjct: 136 LAKRIEQGDEAAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLLKAVDKFD 192
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL
Sbjct: 193 YNKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELG 247
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R PT EEI + + +SP++ RE+ K ++ +SL + G + + I D + + +
Sbjct: 248 REPTAEEIAKEMEMSPDKVREIQKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAA 307
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 308 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 367
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 368 RKLRHPSRSKRLRDFL 383
>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 = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>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 = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDPGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>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 = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 141/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + KKY G F DL Q G GLI A+++F+ + ++ S
Sbjct: 313 GQMAKNHLLEANLRLVVALAKKYT---GRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFS 369
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT +E+
Sbjct: 370 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPDEL 424
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
Q + ++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 425 AQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFMMLQEQ 484
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +ES VI RFGL +TL EI ++RE +R+ E K + KL+HP R
Sbjct: 485 LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHPAR 544
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 545 SQSLRDYL 552
>gi|453051027|gb|EME98546.1| RNA polymerase sigma factor [Streptomyces mobaraensis NBRC 13819 =
DSM 40847]
Length = 516
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 255 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 310
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 311 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 365
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 366 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 425
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 426 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 485
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 486 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 515
>gi|359780768|ref|ZP_09283993.1| RNA polymerase sigma factor RpoD [Pseudomonas psychrotolerans L19]
gi|359370828|gb|EHK71394.1| RNA polymerase sigma factor RpoD [Pseudomonas psychrotolerans L19]
Length = 617
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDL-GREPTDVELAEATNMSAAQVK---KCLEVG 272
+ T W L++ + + E+ Q D+ ++ EL + +Q+K + + +G
Sbjct: 313 NETNTEWTAGLLKGKPKYAEGLERFQADIQAKQAQLAELERDYELKVSQIKDINRAMSIG 372
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 373 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 429
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 484
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 485 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEVA 539
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 540 TSESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 599
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R ++LR +
Sbjct: 600 RKLRHPSRSEHLRSFL 615
>gi|334344185|ref|YP_004552737.1| RNA polymerase sigma 70 subunit RpoD [Sphingobium chlorophenolicum
L-1]
gi|334100807|gb|AEG48231.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingobium
chlorophenolicum L-1]
Length = 681
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 111/362 (30%), Positives = 186/362 (51%), Gaps = 44/362 (12%)
Query: 186 HEKIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPM 231
+KIE LV + Y+Y+ L +L + +++ V + WL ++
Sbjct: 332 QQKIEYLVDQLYAYNRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWLDRISGLD 391
Query: 232 KVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHN 283
K + + + R T+V E+A+AT MS ++ ++ + + R A+ ++++ N
Sbjct: 392 KKWAAFAAAEGRAVERIRTEVSEIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEAN 451
Query: 284 LRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAII 343
LRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI
Sbjct: 452 LRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 508
Query: 344 RSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYR 402
RS+ + T R+P +++ ++ R + L E R PT EE+ + +++ E+ R
Sbjct: 509 RSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR 563
Query: 403 EVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLD 455
+VMK +K +SL + G ++ +FI N I VD N L+ + VL
Sbjct: 564 KVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLA 617
Query: 456 SLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQ 515
SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R
Sbjct: 618 SLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSHKMRS 677
Query: 516 HM 517
+
Sbjct: 678 FL 679
>gi|291454591|ref|ZP_06593981.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074]
gi|421739610|ref|ZP_16177914.1| RNA polymerase, sigma 70 subunit, RpoD [Streptomyces sp. SM8]
gi|581664|emb|CAA53564.1| sigma factor (RNA polymerase subunit) [Streptomyces griseus]
gi|291357540|gb|EFE84442.1| RNA polymerase sigma factor RpoD [Streptomyces albus J1074]
gi|406692020|gb|EKC95737.1| RNA polymerase, sigma 70 subunit, RpoD [Streptomyces sp. SM8]
Length = 510
Score = 144 bits (364), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 256 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 312
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 313 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 367
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 368 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 427
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 428 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 487
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 488 IESKTMSKLRHPSRSQVLRDYL 509
>gi|408826473|ref|ZP_11211363.1| RNA polymerase sigma factor [Streptomyces somaliensis DSM 40738]
Length = 507
Score = 144 bits (364), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 246 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 301
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 302 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 356
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 357 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 416
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 417 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 476
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 477 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 506
>gi|414154896|ref|ZP_11411213.1| RNA polymerase sigma factor rpoD [Desulfotomaculum hydrothermale
Lam5 = DSM 18033]
gi|411453727|emb|CCO09117.1| RNA polymerase sigma factor rpoD [Desulfotomaculum hydrothermale
Lam5 = DSM 18033]
Length = 364
Score = 144 bits (364), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 100/287 (34%), Positives = 157/287 (54%), Gaps = 35/287 (12%)
Query: 243 KDLGREP-----TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K++GR P +VELA K+ + A+ +L + NLRLV+ + K+Y
Sbjct: 100 KEIGRVPLLSPEEEVELA----------KRMEQGDEEAKRRLAEANLRLVVSIAKRYV-- 147
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPF 356
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 148 -GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 206
Query: 357 GLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHS 416
+ T ++ R +LL EL R PT EEI + ++IS E+ RE+MK ++ +SL +
Sbjct: 207 HMVETI-----NKLIRVSRQLLQELGREPTPEEIAKEMDISSEKVREIMKIAQEPVSLET 261
Query: 417 RHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFG 470
G ++ + D +E+ + R PA LLR LD+VL +L +E V+R RFG
Sbjct: 262 PIGEEEDSHLG-----DFIEDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFG 316
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 317 LDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 363
>gi|387126241|ref|YP_006294846.1| RNA polymerase sigma factor RpoD [Methylophaga sp. JAM1]
gi|386273303|gb|AFI83201.1| RNA polymerase sigma factor RpoD [Methylophaga sp. JAM1]
Length = 612
Score = 144 bits (364), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 167/310 (53%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQ-VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---LEVGRA---- 274
W K ++ K + +K+ L L + E+AE + +++K+ + + A
Sbjct: 312 WSDKFIRAKKHYSSTIKKNLDDILAAQSKLAEIAEDRGLDISEIKEISRQMSIAEAKARR 371
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 372 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYA 428
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT +E+ +
Sbjct: 429 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVARQMLQEMGREPTPDELAER 483
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
V + ++ R+V+K SK +S+ + G ++ + D VE+ N PA LR
Sbjct: 484 VEMPEDKVRKVLKISKEPISMETPIGDDEDSHLG-----DFVEDINVMSPADSAIIEGLR 538
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A VL+ L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 539 EATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 598
Query: 508 TRVDYLRQHM 517
+R D LR +
Sbjct: 599 SRSDQLRSFL 608
>gi|148553355|ref|YP_001260937.1| RNA polymerase sigma factor RpoD [Sphingomonas wittichii RW1]
gi|148498545|gb|ABQ66799.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingomonas wittichii RW1]
Length = 674
Score = 144 bits (364), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 109/360 (30%), Positives = 186/360 (51%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
KIE LV + YS++ L +L + +++ V E WL ++ + K
Sbjct: 327 KIEYLVDQLYSFNRRLTTLGGQMLRLAERHKVPRRDFLEAYVNHEMEDGWLDRVGRIDKK 386
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ + R ++ E+A+AT M+ ++ ++ + + R A+ ++++ NLR
Sbjct: 387 WANFAANEADAVDRIRNEIGEIAQATGMALSEFRRIVNMVQKGEREARIAKKEMVEANLR 446
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 447 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 503
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R ++L E+ R PT EE+ + +++ E+ R+V
Sbjct: 504 IADQARTIRIP-----VHMIETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKV 558
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N I VD N L+ + VL SL
Sbjct: 559 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQSN------LKETVTRVLASL 612
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 613 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 672
>gi|386843002|ref|YP_006248060.1| RNA polymerase sigma factor RpoD [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|374103303|gb|AEY92187.1| RNA polymerase sigma factor RpoD [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|451796293|gb|AGF66342.1| RNA polymerase sigma factor RpoD [Streptomyces hygroscopicus subsp.
jinggangensis TL01]
Length = 513
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 252 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 307
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 308 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 362
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 363 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 422
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 423 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 482
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 483 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 512
>gi|269103529|ref|ZP_06156226.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp.
damselae CIP 102761]
gi|268163427|gb|EEZ41923.1| RNA polymerase sigma factor RpoD [Photobacterium damselae subsp.
damselae CIP 102761]
Length = 619
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 169/311 (54%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA---- 274
W+ + + K + + + +++L R T + L E T +S ++K + +G A
Sbjct: 321 WIDEALNSGKPYAERLKTYEEELRRCSTKLRLLEEETGLSIERIKDISRRMSIGEAKARR 380
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 381 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 437
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 438 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 492
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQRQPALL 446
+ + ++ R+V+K +K +S+ + G ++ +FI T +D N L
Sbjct: 493 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLQLPMDAATQTN------L 546
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
R A ++VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 547 RAATNEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 606
Query: 507 PTRVDYLRQHM 517
P+R D LR +
Sbjct: 607 PSRSDVLRSFL 617
>gi|88607510|ref|YP_505167.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ]
gi|88598573|gb|ABD44043.1| RNA polymerase sigma factor RpoD [Anaplasma phagocytophilum HZ]
Length = 627
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 96/255 (37%), Positives = 143/255 (56%), Gaps = 11/255 (4%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 378 AKIQKHERTANRAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 434
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P +++ +I R ++L E+
Sbjct: 435 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINRTLRQMLHEI 489
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ +NI+ E+ R+VMK K +SL S G F + I D V+ EN
Sbjct: 490 GREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENA 549
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG-DRTLGEIAGNLNISREMVRKHEVK 499
A LR VL +L PKE ++R RFG+ G D TL E+ N++RE +R+ E K
Sbjct: 550 AVLADLREITTKVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERIRQIEAK 609
Query: 500 GLMKLKHPTRVDYLR 514
L KL+HP+R LR
Sbjct: 610 ALRKLRHPSRARKLR 624
>gi|430004210|emb|CCF20001.1| sigma D (sigma 70) factor of RNA polymerase [Rhizobium sp.]
Length = 683
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 100/310 (32%), Positives = 160/310 (51%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + KD RE LA T +S A+ ++ + + R
Sbjct: 385 MKSIANLSARGWKDFAREENQTIREIRQEIQNLATETGISIAEFRRIVSMVQKGEREARI 444
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 445 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 501
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ +I R ++L E+ R PT EE+ +
Sbjct: 502 TWWIRQAITRSIADQARTIRIPVHM-----IETINKIVRTSRQMLHEIGREPTPEELAEK 556
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 557 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 611
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 612 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 671
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 672 SRSRKLRSFL 681
>gi|455643217|gb|EMF22355.1| RNA polymerase sigma factor [Streptomyces gancidicus BKS 13-15]
Length = 509
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 255 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 311
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 312 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 366
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 367 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 426
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 427 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 486
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 487 IESKTMSKLRHPSRSQVLRDYL 508
>gi|392531525|ref|ZP_10278662.1| RNA polymerase sigma-43 factor [Carnobacterium maltaromaticum ATCC
35586]
gi|414084160|ref|YP_006992868.1| RNA polymerase sigma factor RpoD [Carnobacterium maltaromaticum
LMA28]
gi|412997744|emb|CCO11553.1| RNA polymerase sigma factor RpoD [Carnobacterium maltaromaticum
LMA28]
Length = 370
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 103/290 (35%), Positives = 161/290 (55%), Gaps = 22/290 (7%)
Query: 230 PMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLF 289
P+++++ KE Q DL +V LAE + LE + ARN L + NLRLV+
Sbjct: 101 PVRMYL--KEIGQVDLLTGAEEVTLAE----------QVLEGNQDARNHLAEANLRLVVS 148
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
+ K+Y G +F DL Q G GL+ A+++F+ + F+ STY +WIR +I RS+
Sbjct: 149 IAKRYM---GRGMQFLDLIQEGNLGLMKAVEKFDHTKGFKFSTYATWWIRQSITRSIADQ 205
Query: 350 SFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKAS 408
+ T R+P + T VR IQR +L+ +L R T EE+ +++S ER RE++K S
Sbjct: 206 ARTIRIPVHMIETINKLVR--IQR---QLIQDLGREATPEELGAEMDLSTERIREILKIS 260
Query: 409 KPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQ 467
+ +SL + G + + + I D + E Q LL+L ++D LD+L +E V+R
Sbjct: 261 QEPVSLETPIGEEDDSQLGDFIEDHGAADPEEQASYELLKLQIEDALDTLTDREENVLRL 320
Query: 468 RFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RFGLD RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 321 RFGLDDGRIRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDYL 370
>gi|386773591|ref|ZP_10095969.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium
paraconglomeratum LC44]
Length = 437
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GRAA++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 197 GRAAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYAKGYKFS 253
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 254 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 308
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 309 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 368
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 369 LHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 428
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 429 SQVLRDYL 436
>gi|21224164|ref|NP_629943.1| RNA polymerase sigma factor [Streptomyces coelicolor A3(2)]
gi|289768642|ref|ZP_06528020.1| transcription initiation factor sigma [Streptomyces lividans TK24]
gi|12644145|sp|P18183.2|HRDB_STRCO RecName: Full=RNA polymerase principal sigma factor HrdB
gi|3036885|emb|CAA18518.1| major vegetative sigma factor [Streptomyces coelicolor A3(2)]
gi|289698841|gb|EFD66270.1| transcription initiation factor sigma [Streptomyces lividans TK24]
Length = 511
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 257 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 313
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 314 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 368
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 369 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 428
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 429 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 488
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 489 IESKTMSKLRHPSRSQVLRDYL 510
>gi|440696490|ref|ZP_20878956.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
gi|440281287|gb|ELP68923.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
Length = 511
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 250 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 305
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 306 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 360
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 361 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 420
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 421 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 510
>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 = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 93/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+LS E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|381200896|ref|ZP_09908028.1| RNA polymerase sigma factor RpoD [Sphingobium yanoikuyae XLDN2-5]
Length = 679
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 154/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+A+AT MS ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 412 EIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 468
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 469 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 523
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 524 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 583
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 584 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 637
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 638 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 677
>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 = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 99/287 (34%), Positives = 158/287 (55%), Gaps = 35/287 (12%)
Query: 243 KDLGREP-----TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K++GR P +VELA K+ + A+ +L + NLRLV+ + K+Y
Sbjct: 103 KEIGRVPLLSPEEEVELA----------KRMEQGDEEAKRRLAEANLRLVVSIAKRYV-- 150
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPF 356
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 151 -GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP- 208
Query: 357 GLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHS 416
+++ ++ R +LL EL R PT EEI + +NIS ++ RE+MK ++ +SL +
Sbjct: 209 ----VHMVETINKLIRVSRQLLQELGREPTPEEIAKEMNISGDKVREIMKIAQEPVSLET 264
Query: 417 RHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFG 470
G ++ + D +E+ + R PA LLR LD+VL +L +E V+R RFG
Sbjct: 265 PIGEEEDSHLG-----DFIEDADARAPAEEASFTLLREQLDEVLKTLTDREQKVLRLRFG 319
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 320 LDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 366
>gi|289706929|ref|ZP_06503266.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58]
gi|289556364|gb|EFD49718.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58]
Length = 509
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 269 GRKAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 325
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 326 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 380
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 381 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 440
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 441 LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 500
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 501 SQVLRDYL 508
>gi|239991260|ref|ZP_04711924.1| RNA polymerase sigma factor [Streptomyces roseosporus NRRL 11379]
Length = 515
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 254 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 309
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 310 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 364
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 365 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 424
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 425 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 484
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 485 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 514
>gi|254386999|ref|ZP_05002279.1| RNA polymerase sigma factor [Streptomyces sp. Mg1]
gi|194345824|gb|EDX26790.1| RNA polymerase sigma factor [Streptomyces sp. Mg1]
Length = 520
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 266 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 322
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 323 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 377
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 378 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 437
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 438 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 497
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 498 IESKTMSKLRHPSRSQVLRDYL 519
>gi|94499953|ref|ZP_01306488.1| RNA polymerase sigma factor [Bermanella marisrubri]
gi|94427811|gb|EAT12786.1| RNA polymerase sigma factor [Oceanobacter sp. RED65]
Length = 606
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 166/306 (54%), Gaps = 18/306 (5%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVGRA--- 274
+W+ L+ K + Q+ E DL R + ++ + + + +K+ + +G A
Sbjct: 307 SWIDDLINAGKDYSQIIENHGYDLKRAQKKIRQVKDRVGLEISDIKEINRRVSIGEARAR 366
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 367 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 423
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R T EE+ +
Sbjct: 424 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVSRQMLQEMGREATPEELAE 478
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALD 451
+++ ++ R+V+K +K +S+ + G ++ + I DV+G + L A
Sbjct: 479 RMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDVNGHSPIDTATETGLTDATR 538
Query: 452 DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVD 511
VL L +ES V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R D
Sbjct: 539 SVLSGLTARESKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSD 598
Query: 512 YLRQHM 517
+LR +
Sbjct: 599 HLRSFL 604
>gi|1582791|prf||2119302A sigma factor
Length = 445
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 184 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 239
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 240 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 294
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 295 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 354
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 355 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 414
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 415 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 444
>gi|336117842|ref|YP_004572610.1| RNA polymerase major sigma factor [Microlunatus phosphovorus NM-1]
gi|334685622|dbj|BAK35207.1| RNA polymerase major sigma factor [Microlunatus phosphovorus NM-1]
Length = 455
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 90/250 (36%), Positives = 145/250 (58%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 213 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 269
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 270 FSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPE 324
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 325 ELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 384
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L DVLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 385 EQLHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 444
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 445 SRSQVLRDYL 454
>gi|297191610|ref|ZP_06909008.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC
25486]
gi|297151002|gb|EFH30922.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC
25486]
Length = 516
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 262 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 318
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 319 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 373
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 374 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 433
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 434 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 493
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 494 IESKTMSKLRHPSRSQVLRDYL 515
>gi|456387731|gb|EMF53221.1| hypothetical protein SBD_4764 [Streptomyces bottropensis ATCC
25435]
Length = 516
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 255 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 310
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 311 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 365
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 366 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 425
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 426 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 485
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 486 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 515
>gi|50726933|gb|AAT81163.1| principal sigma factor [Streptomyces ansochromogenes]
Length = 440
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 186 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 242
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 243 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 297
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 298 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 357
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ D VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 358 VPADAVSFTLLQEQPDSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 417
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 418 IESKTMSKLRHPSRSQVLRDYL 439
>gi|411006265|ref|ZP_11382594.1| RNA polymerase sigma factor [Streptomyces globisporus C-1027]
Length = 515
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 254 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 309
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 310 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 364
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 365 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 424
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 425 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 484
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 485 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 514
>gi|338813221|ref|ZP_08625355.1| RNA polymerase sigma factor RpoD [Acetonema longum DSM 6540]
gi|337274828|gb|EGO63331.1| RNA polymerase sigma factor RpoD [Acetonema longum DSM 6540]
Length = 701
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 91/258 (35%), Positives = 147/258 (56%), Gaps = 20/258 (7%)
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
K +E G A+ L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ +
Sbjct: 456 KYIEQGEMAKRSLSEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYNK 512
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVP 385
++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R P
Sbjct: 513 GYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREP 567
Query: 386 TDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA- 444
EEI + ++IS ER RE+MK ++ +SL + G ++ + D +E+++ PA
Sbjct: 568 VPEEIARAMDISVERVREIMKIAQEPVSLETPIGEEEDSHLG-----DFIEDQDAPAPAE 622
Query: 445 -----LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 499
LL+ L++VL++L P+E V+R RFGLD RTL E+ + ++RE +R+ E K
Sbjct: 623 AASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEAK 682
Query: 500 GLMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ +
Sbjct: 683 ALRKLRHPSRSKKLKDFL 700
>gi|387929762|ref|ZP_10132439.1| RNA polymerase sigma factor RpoD [Bacillus methanolicus PB1]
gi|387586580|gb|EIJ78904.1| RNA polymerase sigma factor RpoD [Bacillus methanolicus PB1]
Length = 375
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 170/316 (53%), Gaps = 33/316 (10%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V+L A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAE--EEIE 126
Query: 265 VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K +E G A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 127 LAKRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 183
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 184 YRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 238
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R PT EEI + ++++PE+ RE++K ++ +SL + G + + I D D +
Sbjct: 239 REPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHA 298
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 299 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 358
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 359 RKLRHPSRSKRLKDFL 374
>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 = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 141/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + KKY G F DL Q G GLI A+++F+ + ++ S
Sbjct: 323 GQMAKNHLLEANLRLVVALAKKYT---GRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFS 379
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT +E+
Sbjct: 380 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPDEL 434
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
Q + ++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 435 AQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFMMLQEQ 494
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +ES VI RFGL +TL EI ++RE +R+ E K + KL+HP R
Sbjct: 495 LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHPAR 554
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 555 SQSLRDYL 562
>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 = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 141/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + KKY G F DL Q G GLI A+++F+ + ++ S
Sbjct: 324 GQMAKNHLLEANLRLVVALAKKYT---GRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFS 380
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT +E+
Sbjct: 381 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPDEL 435
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
Q + ++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 436 AQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFMMLQEQ 495
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +ES VI RFGL +TL EI ++RE +R+ E K + KL+HP R
Sbjct: 496 LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHPAR 555
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 556 SQSLRDYL 563
>gi|182435494|ref|YP_001823213.1| RNA polymerase sigma factor [Streptomyces griseus subsp. griseus
NBRC 13350]
gi|326776131|ref|ZP_08235396.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
griseus XylebKG-1]
gi|11132962|sp|P77951.1|HRDB_STRGR RecName: Full=RNA polymerase principal sigma factor HrdB
gi|1617256|gb|AAB16905.1| principal sigma factor [Streptomyces griseus]
gi|178464010|dbj|BAG18530.1| RNA polymerase principal sigma factor hrdB [Streptomyces griseus
subsp. griseus NBRC 13350]
gi|326656464|gb|EGE41310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
griseus XylebKG-1]
Length = 514
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 253 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 308
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 309 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 363
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 364 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 423
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 424 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 483
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 484 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 513
>gi|423093350|ref|ZP_17081146.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Q2-87]
gi|397882398|gb|EJK98885.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Q2-87]
Length = 615
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + EA T +S A++K + +G
Sbjct: 311 NEVDESWTDALAKGKSKYAEAIARLQPDIVRCQQKLSALEAETGLSIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|294631847|ref|ZP_06710407.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14]
gi|292835180|gb|EFF93529.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14]
Length = 515
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 261 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 317
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 318 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 372
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 373 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 432
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 433 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 492
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 493 IESKTMSKLRHPSRSQVLRDYL 514
>gi|48745|emb|CAA37175.1| unnamed protein product [Streptomyces coelicolor A3(2)]
Length = 442
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 188 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 244
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 245 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 299
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 300 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 359
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 360 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 419
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 420 IESKTMSKLRHPSRSQVLRDYL 441
>gi|408528831|emb|CCK27005.1| RNA polymerase principal sigma factor hrdB [Streptomyces davawensis
JCM 4913]
Length = 511
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 250 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 305
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 306 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 360
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 361 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 420
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 421 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 480
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 481 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 510
>gi|302554625|ref|ZP_07306967.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes
DSM 40736]
gi|302472243|gb|EFL35336.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes
DSM 40736]
Length = 513
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 259 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 315
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 316 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 370
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 371 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 430
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 431 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 490
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 491 IESKTMSKLRHPSRSQVLRDYL 512
>gi|330812146|ref|YP_004356608.1| RNA polymerase sigma-70 factor [Pseudomonas brassicacearum subsp.
brassicacearum NFM421]
gi|423699702|ref|ZP_17674192.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Q8r1-96]
gi|327380254|gb|AEA71604.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas brassicacearum
subsp. brassicacearum NFM421]
gi|387996380|gb|EIK57710.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens Q8r1-96]
Length = 615
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + EA T +S A++K + +G
Sbjct: 311 NEVDESWTDALAKGKSKYAEAIARLQPDIVRCQQKLSALEAETGLSIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|254391058|ref|ZP_05006266.1| RNA polymerase principal sigma factor hrdB [Streptomyces
clavuligerus ATCC 27064]
gi|197704753|gb|EDY50565.1| RNA polymerase principal sigma factor hrdB [Streptomyces
clavuligerus ATCC 27064]
Length = 514
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 253 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 308
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 309 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 363
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 364 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 423
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 424 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 483
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 484 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 513
>gi|377573537|ref|ZP_09802593.1| RNA polymerase sigma factor SigA [Mobilicoccus pelagius NBRC
104925]
gi|377537652|dbj|GAB47758.1| RNA polymerase sigma factor SigA [Mobilicoccus pelagius NBRC
104925]
Length = 590
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 350 GKNAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 406
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 407 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 461
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 462 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 521
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 522 LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 581
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 582 SQVLRDYL 589
>gi|418472299|ref|ZP_13042049.1| RNA polymerase sigma factor [Streptomyces coelicoflavus ZG0656]
gi|371547089|gb|EHN75499.1| RNA polymerase sigma factor [Streptomyces coelicoflavus ZG0656]
Length = 554
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 300 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 356
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 357 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 411
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 412 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 471
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 472 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 531
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 532 IESKTMSKLRHPSRSQVLRDYL 553
>gi|345848811|ref|ZP_08801829.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
gi|345639681|gb|EGX61170.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
Length = 512
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 251 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 306
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 307 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 361
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 362 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 421
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 422 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 481
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 482 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 511
>gi|56421017|ref|YP_148335.1| RNA polymerase sigma factor RpoD [Geobacillus kaustophilus HTA426]
gi|261417657|ref|YP_003251339.1| RNA polymerase sigma factor RpoD [Geobacillus sp. Y412MC61]
gi|297529352|ref|YP_003670627.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacillus sp.
C56-T3]
gi|319767537|ref|YP_004133038.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacillus sp.
Y412MC52]
gi|375009568|ref|YP_004983201.1| RNA polymerase sigma factor rpoD [Geobacillus thermoleovorans
CCB_US3_UF5]
gi|448238761|ref|YP_007402819.1| RNA polymerase sigma factor [Geobacillus sp. GHH01]
gi|56380859|dbj|BAD76767.1| DNA-directed RNA polymerase major sigma-43 factor (sigma-A)
[Geobacillus kaustophilus HTA426]
gi|261374114|gb|ACX76857.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp.
Y412MC61]
gi|297252604|gb|ADI26050.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp.
C56-T3]
gi|317112403|gb|ADU94895.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp.
Y412MC52]
gi|359288417|gb|AEV20101.1| RNA polymerase sigma factor rpoD [Geobacillus thermoleovorans
CCB_US3_UF5]
gi|445207603|gb|AGE23068.1| RNA polymerase sigma factor [Geobacillus sp. GHH01]
Length = 375
Score = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 168/320 (52%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVPLLSAEEEIELA---- 128
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 129 ------KRIEQGDEEAKRRLTEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 179
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 180 EKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 234
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVEN 437
+L R PT EEI + ++++PE+ RE++K ++ +SL + G + + I D D
Sbjct: 235 QDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSP 294
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 SEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>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 = 144 bits (363), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 171/309 (55%), Gaps = 11/309 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+TDLV +++ P+L+ E K +Q ++ +V++ L +GREP+ E A A
Sbjct: 21 ATDLVRTYLREIGRVPLLTHEEEIQYGKQVQFSRILHEVRDSLINQIGREPSLEEWALAA 80
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N+ A++ + G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 81 NLEVAELNDAIADGETAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGSIGMQRG 137
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ + T R+P I + +I++A+ +L
Sbjct: 138 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPI-----HITEKLNKIKKAQRQL 192
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R P+ E+ Q ++++P++ RE ++ ++ LSL R G + + + + G
Sbjct: 193 SQQLGRAPSAAELAQELDLTPKQVREYLERARLPLSLDLRLGDNYDTELGEMLEDPGASP 252
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKH 496
E + L L+ +++ L P++ VI+ RFGL DG+ TL +I LNISRE VR+
Sbjct: 253 EEFVMQSSLSYDLERLMEELTPQQKEVIKLRFGLLDGQA-LTLAKIGDILNISRERVRQI 311
Query: 497 EVKGLMKLK 505
E + L KL+
Sbjct: 312 EREALTKLR 320
>gi|153306|gb|AAA26763.1| principal sigma-like factor [Streptomyces aureofaciens]
gi|450078|prf||1920369B RNA polymerase:SUBUNIT=sigma
Length = 525
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 271 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 327
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 328 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 382
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 383 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 442
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 443 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 502
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 503 IESKTMSKLRHPSRSQVLRDYL 524
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 141/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + KKY G F DL Q G GLI A+++F+ + ++ S
Sbjct: 324 GQMAKNHLLEANLRLVVALAKKYT---GRGMLFLDLIQEGNLGLIRAVEKFDYSKGYKFS 380
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT +E+
Sbjct: 381 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPDEL 435
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
Q + ++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 436 AQELEMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFMMLQEQ 495
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +ES VI RFGL +TL EI ++RE +R+ E K + KL+HP R
Sbjct: 496 LQRVLDTLSERESGVIAMRFGLKDGQPKTLDEIGRRYGVTRERIRQIEAKTMSKLRHPAR 555
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 556 SQSLRDYL 563
>gi|257068601|ref|YP_003154856.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM
4810]
gi|256559419|gb|ACU85266.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM
4810]
Length = 433
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GRAA++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 193 GRAAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYAKGYKFS 249
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 250 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 304
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 305 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 364
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL+ +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 365 LHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 424
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 425 SQVLRDYL 432
>gi|297202863|ref|ZP_06920260.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083]
gi|297148238|gb|EDY59236.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083]
Length = 512
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 251 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 306
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 307 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 361
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 362 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 421
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 422 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 481
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 482 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 511
>gi|395770929|ref|ZP_10451444.1| RNA polymerase sigma factor [Streptomyces acidiscabies 84-104]
Length = 513
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 259 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 315
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 316 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 370
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 371 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 430
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 431 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 490
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 491 IESKTMSKLRHPSRSQVLRDYL 512
>gi|357392296|ref|YP_004907137.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
gi|311898773|dbj|BAJ31181.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
Length = 541
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 287 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 343
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 344 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 398
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 399 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 458
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 459 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 518
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 519 IESKTMSKLRHPSRSQVLRDYL 540
>gi|386382689|ref|ZP_10068283.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
gi|385669860|gb|EIF93009.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
Length = 516
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 262 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 318
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 319 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 373
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 374 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 433
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 434 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 493
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 494 IESKTMSKLRHPSRSQVLRDYL 515
>gi|238022360|ref|ZP_04602786.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147]
gi|237866974|gb|EEP68016.1| hypothetical protein GCWU000324_02267 [Kingella oralis ATCC 51147]
Length = 654
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 105/343 (30%), Positives = 177/343 (51%), Gaps = 21/343 (6%)
Query: 187 EKIEKLVREY-SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDL 245
EKI KL RE D V++D + ++T W+ + + + + + ++ + +
Sbjct: 315 EKIRKLEREIRDICLDRVNMDRDHFIAHFLPNATNLDWIEEEIAKKRAWSETLDRFRHAI 374
Query: 246 GREPTD---------VELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQ 296
+ T+ V +AE ++S VK E AA+ K+I+ NLRLV+ + KKY
Sbjct: 375 LEKQTEMAELEQHARVSIAELKDISKNMVKSEKETA-AAKQKMIQANLRLVISIAKKYTN 433
Query: 297 DFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVP 355
G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P
Sbjct: 434 ---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 490
Query: 356 FGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLH 415
+ ++ ++ R + L E P ++ + + + ++ R++MK +K +S+
Sbjct: 491 VHM-----IETINKMNRISRQYLQETGEDPDSAKLAELMEMPEDKIRKIMKIAKEPISME 545
Query: 416 SRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
S G + + I DV+ V + LR VL+SL P+E+ V+R RFG+D
Sbjct: 546 SPIGDDDDSHLGDFIEDVNNVAPAEAAMYSSLREVTAGVLESLTPREAKVLRMRFGIDMN 605
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
D TL E+ +++RE +R+ E K L KL+HPTR D L+ +
Sbjct: 606 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDKLKSFL 648
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 154/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+A+AT MS ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 412 EIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 468
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 469 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 523
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 524 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 583
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 584 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 637
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 638 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 677
>gi|443623591|ref|ZP_21108088.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
gi|443342834|gb|ELS56979.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
Length = 511
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 257 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 313
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 314 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 368
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 369 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 428
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 429 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 488
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 489 IESKTMSKLRHPSRSQVLRDYL 510
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 94/264 (35%), Positives = 150/264 (56%), Gaps = 9/264 (3%)
Query: 255 AEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKG 314
AE MS + ++ L GR A+ K+++ NLRLV+ + KKY G FQDL Q G G
Sbjct: 148 AEEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDLIQEGSLG 204
Query: 315 LITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRA 373
LI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T I++
Sbjct: 205 LIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI-----SRIKKV 259
Query: 374 KLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVD 433
+L EL R PT+EEI + I+ E+ R + K+++ +SL + G ++ + + +
Sbjct: 260 TKQLSQELGRRPTEEEIATRMEITIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESE 319
Query: 434 GVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
G E + LLR L+ VL++L P+E V++ R+GLD +TL EI N++RE +
Sbjct: 320 GETPEERVAKVLLREDLESVLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERI 379
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L KL+HP R L++++
Sbjct: 380 RQIEAKALRKLRHPNRNSVLKEYI 403
>gi|138896056|ref|YP_001126509.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans
NG80-2]
gi|196248949|ref|ZP_03147649.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp.
G11MC16]
gi|134267569|gb|ABO67764.1| RNA polymerase sigma factor RpoD [Geobacillus thermodenitrificans
NG80-2]
gi|196211825|gb|EDY06584.1| RNA polymerase, sigma 70 subunit, RpoD family [Geobacillus sp.
G11MC16]
Length = 375
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 105/341 (30%), Positives = 180/341 (52%), Gaps = 58/341 (17%)
Query: 189 IEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGRE 248
I++LV+E + D + +PP + K+ P+++++ K++GR
Sbjct: 80 IDELVKEEEF-------DLNDLSVPPGV---------KINDPVRMYL-------KEIGRV 116
Query: 249 P-----TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPR 303
P ++ELA K+ + A+ +L + NLRLV+ + K+Y G
Sbjct: 117 PLLSAEEEIELA----------KRIEQGDEEAKRRLTEANLRLVVSIAKRYV---GRGML 163
Query: 304 FQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTS 362
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P + T
Sbjct: 164 FLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 223
Query: 363 IMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ 422
+R +QR +LL +L R PT EEI + ++++PE+ RE++K ++ +SL + G
Sbjct: 224 NKLIR--VQR---QLLQDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEED 278
Query: 423 EEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+ + D +E++ P+ LL+ L+DVLD+L +E V+R RFGLD
Sbjct: 279 DSHLG-----DFIEDQEATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 333
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 334 RTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 374
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 154/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+A+AT MS ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 414 EIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 470
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 471 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 525
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 526 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 585
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 586 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 639
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 640 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 679
>gi|429199232|ref|ZP_19190999.1| RNA polymerase sigma factor RpoD [Streptomyces ipomoeae 91-03]
gi|428665067|gb|EKX64323.1| RNA polymerase sigma factor RpoD [Streptomyces ipomoeae 91-03]
Length = 476
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 222 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 278
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 279 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 333
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 334 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 393
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 394 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 453
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 454 IESKTMSKLRHPSRSQVLRDYL 475
>gi|423686991|ref|ZP_17661799.1| RNA polymerase sigma factor RpoD [Vibrio fischeri SR5]
gi|371493750|gb|EHN69350.1| RNA polymerase sigma factor RpoD [Vibrio fischeri SR5]
Length = 613
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 91/305 (29%), Positives = 167/305 (54%), Gaps = 18/305 (5%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVGRA---- 274
W ++M K +V+ ++ ++D+ R ++ E T + +K + +G A
Sbjct: 315 WFNEIMASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARR 374
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 375 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 432 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 486
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+ + ++ R+V+K +K +S+ + G ++ + + + +E + L+ A +D
Sbjct: 487 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATND 546
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R +
Sbjct: 547 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606
Query: 513 LRQHM 517
LR +
Sbjct: 607 LRSFL 611
>gi|197335189|ref|YP_002157048.1| RNA polymerase sigma factor RpoD [Vibrio fischeri MJ11]
gi|197316679|gb|ACH66126.1| RNA polymerase sigma factor RpoD (Sigma-70) [Vibrio fischeri MJ11]
Length = 613
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 91/305 (29%), Positives = 167/305 (54%), Gaps = 18/305 (5%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVGRA---- 274
W ++M K +V+ ++ ++D+ R ++ E T + +K + +G A
Sbjct: 315 WFNEIMASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARR 374
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 375 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 432 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 486
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+ + ++ R+V+K +K +S+ + G ++ + + + +E + L+ A +D
Sbjct: 487 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATND 546
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R +
Sbjct: 547 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606
Query: 513 LRQHM 517
LR +
Sbjct: 607 LRSFL 611
>gi|332307721|ref|YP_004435572.1| RNA polymerase sigma-70 subunit RpoD [Glaciecola sp. 4H-3-7+YE-5]
gi|332175050|gb|AEE24304.1| RNA polymerase, sigma 70 subunit, RpoD [Glaciecola sp. 4H-3-7+YE-5]
Length = 613
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 97/319 (30%), Positives = 172/319 (53%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T WL++LM +V+ +E+L++ +G+ + E T + A +K +
Sbjct: 309 NETSTDWLYELMASDAPYVEELKVHQEELERSIGKMNA---VEEETGLIIADIKDINRRM 365
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 366 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 477
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 478 PTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTIVQPL 532
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 533 DSATGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 592
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 KALRKLRHPSRSEQLRSFL 611
>gi|345009804|ref|YP_004812158.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
violaceusniger Tu 4113]
gi|344036153|gb|AEM81878.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
violaceusniger Tu 4113]
Length = 502
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 248 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 304
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 305 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 359
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 360 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 419
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 420 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 479
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 480 IESKTMSKLRHPSRSQVLRDYL 501
>gi|29828986|ref|NP_823620.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680]
gi|29606091|dbj|BAC70155.1| RNA polymerase major sigma factor, sigma-70 family [Streptomyces
avermitilis MA-4680]
Length = 512
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 251 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 306
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 307 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVIN 361
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 362 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 421
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 422 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 481
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 482 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 511
>gi|290956933|ref|YP_003488115.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22]
gi|260646459|emb|CBG69556.1| major vegetative sigma factor HrdB [Streptomyces scabiei 87.22]
Length = 516
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 255 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 310
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 311 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 365
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 366 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 425
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 426 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 485
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 486 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 515
>gi|408377460|ref|ZP_11175061.1| RNA polymerase sigma factor RpoD [Agrobacterium albertimagni AOL15]
gi|407748451|gb|EKF59966.1| RNA polymerase sigma factor RpoD [Agrobacterium albertimagni AOL15]
Length = 687
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 100/310 (32%), Positives = 160/310 (51%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + KD RE LA T +S A+ ++ + + R
Sbjct: 389 MKSIANLSARGWKDFAREENQTIRDIRGEIQNLATETGISIAEFRRIVSMVQKGEREARI 448
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 449 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 505
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ +I R ++L E+ R PT EE+ +
Sbjct: 506 TWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEK 560
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 561 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 615
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 616 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 675
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 676 SRSRKLRSFL 685
>gi|365867904|ref|ZP_09407470.1| RNA polymerase sigma factor [Streptomyces sp. W007]
gi|364002693|gb|EHM23867.1| RNA polymerase sigma factor [Streptomyces sp. W007]
Length = 497
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 236 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 291
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 292 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 346
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 347 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 406
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 407 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 466
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 467 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 496
>gi|291436829|ref|ZP_06576219.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC
14672]
gi|291339724|gb|EFE66680.1| RNA polymerase sigma factor RpoD [Streptomyces ghanaensis ATCC
14672]
Length = 509
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 255 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 311
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 312 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 366
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 367 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 426
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 427 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 486
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 487 IESKTMSKLRHPSRSQVLRDYL 508
>gi|262275021|ref|ZP_06052832.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886]
gi|262221584|gb|EEY72898.1| RNA polymerase sigma factor RpoD [Grimontia hollisae CIP 101886]
Length = 615
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ + WL K + K + + +Q ++DL R +++ E T +S +VK + +G
Sbjct: 311 NESSDAWLDKALASDKPYAERLKQHEEDLRRCIQKLKIVEDETGLSVERVKDISRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D N
Sbjct: 483 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPMDSATMNN- 541
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
L++A +VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 542 -----LKMATSEVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 596
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 597 LRKLRHPSRSEVLRSFL 613
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 92/312 (29%), Positives = 172/312 (55%), Gaps = 11/312 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
S D V +K+M P+L E L + +Q + +++ Q +++ GR P ELA+A
Sbjct: 51 SDDAVGAFFKEMARYPLLKPDEEVELARHIQQLNEIEELRAQFEEEHGRRPNKAELADAL 110
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++ Q+++ L + A+ K+I+ NLRLV+ + K+Y G F DL Q G GL A
Sbjct: 111 GLTERQLEQRLHRSQVAKRKMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGAMGLNRA 167
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+P + ++ STY +WIR I R++ + T R+P I++ ++++A+ EL
Sbjct: 168 TEKFDPDKGYKFSTYAYWWIRQGITRTIANDARTIRLPI-----HIVEKLNKLKKAQREL 222
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVE 436
+LKR PT+ E+ + I+ E+ +++++ + LSL+ R G ++ E ++ + D +
Sbjct: 223 RRDLKRPPTEAELATVLEITEEQLQQLLQVRRQSLSLNVRVGREEDTELVDLLEDNNSRS 282
Query: 437 NENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E Q ++R + +VL + L +E ++ R+G++ TL E+ N+SRE VR+
Sbjct: 283 PEAQMSERMMRQEIAEVLSEVLTEREKEIVCLRYGIETGETHTLEEVGNIFNLSRERVRQ 342
Query: 496 HEVKGLMKLKHP 507
+ + + KL+ P
Sbjct: 343 IQTRAMRKLRRP 354
>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 = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 105/345 (30%), Positives = 189/345 (54%), Gaps = 13/345 (3%)
Query: 168 NEDEKVVTKTRKTDSKDEHEKIEKLVREYSYS--TDLVSLDWKKMKIPPVLSSTEHTWLF 225
+E+ +V + ++D +D + Y+ + D V +K+M P+L + E L
Sbjct: 31 DEEPPIVVENLESDERDGDDMAAARPSGYNKTEHDDAVGAFFKEMARYPLLKADEEVELA 90
Query: 226 KLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLR 285
+ ++ ++ +++ L LG+EPT +E+A M+ Q++ L GR A+ K+I+ NLR
Sbjct: 91 RRVRFLEEIRELQAALNLKLGQEPTKLEIASELEMTEKQLESRLYQGRVAKRKMIRSNLR 150
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + K+Y G F DL Q G GL A ++F+P + ++ STY +WIR AI R+
Sbjct: 151 LVVSIAKRYLN---RGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWWIRQAITRA 207
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P I++ ++++A+ EL +L R PT+ E+ + ++IS ++ R++
Sbjct: 208 IANDARTIRLPI-----HIVEKLNKLKKAQRELKQKLCRNPTEGEMAEALDISVQQLRQL 262
Query: 405 MKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVL-DSLKPKES 462
+ + LSL+ R G ++ E ++ + D D + E + ++R + +VL D L P+E
Sbjct: 263 QQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTPREK 322
Query: 463 LVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VI R+GL TL E+ N+SRE VR+ + K + KL+ P
Sbjct: 323 DVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRP 367
>gi|71891846|ref|YP_277575.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia
pennsylvanicus str. BPEN]
gi|71795952|gb|AAZ40703.1| RNA polymerase sigma-70 factor [Candidatus Blochmannia
pennsylvanicus str. BPEN]
Length = 611
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 99/320 (30%), Positives = 168/320 (52%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKV-----FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC--- 268
+ T TW F M +V E +Q L + ++ + T ++ QVK
Sbjct: 307 NQTNKTW-FNTALSMHTSWSEKLYKVDEDVQNSLSKLH---QIEKETGLTIEQVKDINRR 362
Query: 269 LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ +G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 363 MSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 419
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 420 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRVSRQMLQEIGH 474
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT EE+ + + +S ++ R+V+K +K +S+ + G ++ + D +E+ N P
Sbjct: 475 EPTPEELAERMLMSEDKIRKVLKIAKEPISMETPVGDDEDSHLG-----DFIEDTNHDLP 529
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
LR A D+L L P+E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 530 LDSATSDNLRTATHDILSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 589
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 590 AKALRKLRHPSRSEILRSFL 609
>gi|292490206|ref|YP_003525645.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4]
gi|291578801|gb|ADE13258.1| RNA polymerase sigma factor RpoD [Nitrosococcus halophilus Nc4]
Length = 602
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 88/275 (32%), Positives = 155/275 (56%), Gaps = 17/275 (6%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+ L + MS A++K + L +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 331 IALEQGAGMSVAEIKEANRSLSIGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQF 387
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 388 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 442
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT +E+ + V++ ++ R+V+K +K +S+ + G ++
Sbjct: 443 IETINKLNRVSRQMLQEMGREPTPDELAERVDMPKDKVRKVLKIAKEPISMETPIGDDED 502
Query: 424 EFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEI 482
+ + D + V + + LR +L L P+E+ V+R RFG+D D TL E+
Sbjct: 503 SHLGDFVEDAEVVSPPDAAIFSGLRETTQQILAGLTPREAKVLRMRFGIDMNTDHTLEEV 562
Query: 483 AGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R + LR +
Sbjct: 563 GKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFL 597
>gi|184201082|ref|YP_001855289.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201]
gi|183581312|dbj|BAG29783.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201]
Length = 572
Score = 144 bits (362), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 142/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 332 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 388
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 389 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 443
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 444 ANELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 503
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 504 LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 563
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 564 SQVLRDYL 571
>gi|59712861|ref|YP_205637.1| RNA polymerase sigma factor RpoD [Vibrio fischeri ES114]
gi|59480962|gb|AAW86749.1| RNA polymerase, sigma-70 (sigma-D) factor [Vibrio fischeri ES114]
Length = 613
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 91/305 (29%), Positives = 167/305 (54%), Gaps = 18/305 (5%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVGRA---- 274
W ++M K +V+ ++ ++D+ R ++ E T + +K + +G A
Sbjct: 315 WFNEIMASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARR 374
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 375 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 432 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 486
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+ + ++ R+V+K +K +S+ + G ++ + + + +E + L+ A +D
Sbjct: 487 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATND 546
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R +
Sbjct: 547 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 606
Query: 513 LRQHM 517
LR +
Sbjct: 607 LRSFL 611
>gi|408681217|ref|YP_006881044.1| RNA polymerase sigma factor RpoD [Streptomyces venezuelae ATCC
10712]
gi|328885546|emb|CCA58785.1| RNA polymerase sigma factor RpoD [Streptomyces venezuelae ATCC
10712]
Length = 567
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 313 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 369
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 370 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 424
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 425 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 484
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 485 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 544
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 545 IESKTMSKLRHPSRSQVLRDYL 566
>gi|441150033|ref|ZP_20965405.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
gi|440619376|gb|ELQ82425.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
Length = 516
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 262 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 318
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 319 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 373
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 374 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 433
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 434 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 493
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 494 IESKTMSKLRHPSRSQVLRDYL 515
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 105/327 (32%), Positives = 175/327 (53%), Gaps = 26/327 (7%)
Query: 197 SYSTD-LVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQ--KDLGRE-PTDV 252
S+ TD V + K++ +LSS E +L Q M + KEQL ++ G E P +V
Sbjct: 139 SFGTDDPVRMYLKEIGKVNLLSSDEE---IELAQAMGAGAEAKEQLAELQESGEEIPAEV 195
Query: 253 ELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
A++ K ++ G A+ +L + NLRLV+ + K+Y G +F DL Q G
Sbjct: 196 ---------LAELNKAIKRGERAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGN 243
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A+++F+ + ++ STY +WIR AI R++ + T R+P +++ ++
Sbjct: 244 LGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKVI 298
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-IT 430
R +LL EL P+ EEI + +++ ER RE++K ++ +SL + G ++ + I
Sbjct: 299 RVSRQLLQELGHDPSPEEIAEEMSMPVERVREILKIAQEPVSLETPIGEEEDSHLGDFIP 358
Query: 431 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 490
D D E LL+ L +VL +L P+E V++ RFG++ RTL E+ N++R
Sbjct: 359 DEDASEPAEAASFTLLKEQLVEVLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTR 418
Query: 491 EMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E +R+ E K L KL+HP+R L+ +
Sbjct: 419 ERIRQIEAKALRKLRHPSRSKKLKDFL 445
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/252 (36%), Positives = 143/252 (56%), Gaps = 11/252 (4%)
Query: 269 LEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRR 327
+E G A A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++
Sbjct: 114 MEQGDAEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYRKG 170
Query: 328 FRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R P
Sbjct: 171 FKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREPH 225
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPAL 445
EEI + +N+ E+ RE+MK S+ +SL + G ++ + I D D L
Sbjct: 226 PEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTL 285
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L+ L DVLD+L P+E V+R RFGLD RTL E+ N++RE +R+ E K L KL+
Sbjct: 286 LKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 345
Query: 506 HPTRVDYLRQHM 517
HP+R L+ ++
Sbjct: 346 HPSRSKKLKDYL 357
>gi|237803341|ref|ZP_04590926.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae
str. 1_6]
gi|331025322|gb|EGI05378.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. oryzae
str. 1_6]
Length = 615
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 311 NEVDESWTDALAKGKSKYAEAIARLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|398781886|ref|ZP_10545827.1| RNA polymerase sigma factor, partial [Streptomyces auratus AGR0001]
gi|396997124|gb|EJJ08095.1| RNA polymerase sigma factor, partial [Streptomyces auratus AGR0001]
Length = 399
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 138 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 193
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 194 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 248
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 249 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 308
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 309 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 368
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 369 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 398
>gi|359148502|ref|ZP_09181650.1| RNA polymerase sigma factor [Streptomyces sp. S4]
Length = 491
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 237 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 293
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 294 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 348
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 349 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 408
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 409 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 468
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 469 IESKTMSKLRHPSRSQVLRDYL 490
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 124/407 (30%), Positives = 208/407 (51%), Gaps = 47/407 (11%)
Query: 144 KPVVRNQVKRPKRLSLDKRIELRKNED-------EKVV----TKTRKTDSKDEHEKIEKL 192
KPVV ++ PK L+ R+E+++N D EK V TK + + E ++KL
Sbjct: 55 KPVVVEKMDSPKTLA---RVEIKENGDTFNVKAYEKAVKGYITKRKHLGEALDEEIMDKL 111
Query: 193 VREYSYSTDLVSLDWKKMK-------------IPPVLSSTE-------HTWLFKLMQPMK 232
++ D + +K+++ P L + E T + +++ ++
Sbjct: 112 SVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSPLALVTDEIEKEEVSDTAMDEIVTNVR 171
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIK 292
+ V+ L K++GR P + L E T ++ A + E A+ L + NLRLV+ + K
Sbjct: 172 IDDPVRMYL-KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAK 228
Query: 293 KYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT 352
+Y G +F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T
Sbjct: 229 RYS---GRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQART 285
Query: 353 -RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPI 411
R+P + T +R +QR LL EL R P+ EEI + ++++P++ REV+K ++
Sbjct: 286 IRIPVHMVETINKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEP 340
Query: 412 LSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
+SL + G + + + D +E+ + LLR LDDV+D+L +E V+R RFG
Sbjct: 341 VSLETPIGEEDDSHLGDFIEDDVIESPVDYTNRILLREQLDDVMDTLTDREENVLRMRFG 400
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD TL ++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 401 LDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447
>gi|289676145|ref|ZP_06497035.1| RNA polymerase sigma factor RpoD, partial [Pseudomonas syringae pv.
syringae FF5]
Length = 438
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 134 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 193
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 194 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 250
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 251 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 305
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 306 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 360
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 361 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 420
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 421 RKLRHPTRSEHLRSFL 436
>gi|260767412|ref|ZP_05876349.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972]
gi|375132021|ref|YP_004994121.1| RNA polymerase sigma factor RpoD [Vibrio furnissii NCTC 11218]
gi|260617524|gb|EEX42706.1| RNA polymerase sigma factor RpoD [Vibrio furnissii CIP 102972]
gi|315181195|gb|ADT88109.1| RNA polymerase sigma factor RpoD [Vibrio furnissii NCTC 11218]
Length = 628
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + WL +++ K +V Q + D+ R +++ E T+++ ++K + +G
Sbjct: 324 NESSEAWLDQVLASDKPYVDKIRQYEDDIRRSIQKLQIIEQETSLTVERIKDISRRMSIG 383
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 384 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 440
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 441 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 495
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 496 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 550
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 551 TATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 610
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 611 RKLRHPSRSETLRSFL 626
>gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis
thaliana]
Length = 572
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/286 (32%), Positives = 155/286 (54%), Gaps = 14/286 (4%)
Query: 239 EQLQKDL----GREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKY 294
E+LQ +L GR+PT + A A + +++ + G ++K+IK N+RLV+ + K Y
Sbjct: 292 ERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNY 351
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTR 353
G QDL Q G +GL+ ++F+ + F+ STY +WI+ A+ +S++ S R
Sbjct: 352 ---QGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIR 408
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+PF +++ ++ A+ +L E + P +EEI + +S +R V+ + KP S
Sbjct: 409 LPF-----HMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRS 463
Query: 414 LHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLD 472
L + G+ Q + I D + V E+ +R LD VLDSL +E VIR RFG++
Sbjct: 464 LDQKIGMNQNLKPSEVIADPEAVTPEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGME 523
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
+TL EI + +SRE VR+ E KLK+ R ++L+Q++V
Sbjct: 524 DGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>gi|374986056|ref|YP_004961551.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
gi|297156708|gb|ADI06420.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
Length = 515
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 261 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 317
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 318 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 372
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 373 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 432
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 433 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 492
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 493 IESKTMSKLRHPSRSQVLRDYL 514
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 154/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+A+AT MS ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 414 EIAQATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 470
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 471 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 525
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 526 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 585
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 586 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 639
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 640 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 679
>gi|239917829|ref|YP_002957387.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Micrococcus luteus NCTC
2665]
gi|281413678|ref|ZP_06245420.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family protein [Micrococcus
luteus NCTC 2665]
gi|239839036|gb|ACS30833.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Micrococcus luteus NCTC
2665]
Length = 497
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 257 GRKAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 313
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 314 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 368
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 369 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 428
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 429 LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 488
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 489 SQVLRDYL 496
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 91/251 (36%), Positives = 145/251 (57%), Gaps = 20/251 (7%)
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
AA+ KL + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++ ++ STY
Sbjct: 125 AAKKKLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTY 181
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ + T R+P +++ ++ R +LL EL R P+ EEI +
Sbjct: 182 ATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREPSPEEIAE 236
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LL 446
++I ER RE++K S+ +SL + G ++ + D +++EN PA LL
Sbjct: 237 EMDIPVERVREILKISQEPVSLETPIGEEEDSHLG-----DFIQDENVPVPADAAAFTLL 291
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ LD+VL +L +E V+R RFGLD RTL E+ N++RE +R+ E K L KL+H
Sbjct: 292 KEQLDEVLGTLTEREQKVLRLRFGLDDSRARTLEEVGKEFNVTRERIRQIEAKALRKLRH 351
Query: 507 PTRVDYLRQHM 517
P+R L+ ++
Sbjct: 352 PSRSRKLKDYL 362
>gi|392395044|ref|YP_006431646.1| sigma-70 family RNA polymerase sigma factor [Desulfitobacterium
dehalogenans ATCC 51507]
gi|390526122|gb|AFM01853.1| RNA polymerase sigma factor, sigma-70 family [Desulfitobacterium
dehalogenans ATCC 51507]
Length = 394
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/278 (34%), Positives = 153/278 (55%), Gaps = 17/278 (6%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G +A+ +L + NLRLV+ + K+Y G
Sbjct: 130 KEIGRVPL------LTAEEEIELAKRMEQGDESAKRRLAEANLRLVVSIAKRYV---GRG 180
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P
Sbjct: 181 MLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRIP----- 235
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI ++IS ER RE+MK ++ +SL + G
Sbjct: 236 VHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERVREIMKIAQEPVSLETPIGE 295
Query: 421 TQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
++ + I D D LL+ L++VL++L P+E V+R RFGLD RTL
Sbjct: 296 EEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPREEKVLRLRFGLDDGRTRTL 355
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 356 EEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 393
>gi|294815528|ref|ZP_06774171.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
gi|294328127|gb|EFG09770.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
Length = 529
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 268 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 323
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 324 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 378
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 379 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 438
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 439 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 498
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 499 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 528
>gi|345002500|ref|YP_004805354.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces sp.
SirexAA-E]
gi|344318126|gb|AEN12814.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp.
SirexAA-E]
Length = 515
Score = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 261 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 317
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 318 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 372
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 373 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 432
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 433 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 492
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 493 IESKTMSKLRHPSRSQVLRDYL 514
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/252 (36%), Positives = 143/252 (56%), Gaps = 11/252 (4%)
Query: 269 LEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRR 327
+E G A A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++
Sbjct: 114 IEQGDAEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYRKG 170
Query: 328 FRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R P
Sbjct: 171 FKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREPH 225
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPAL 445
EEI + +N+ E+ RE+MK S+ +SL + G ++ + I D D L
Sbjct: 226 PEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTL 285
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L+ L DVLD+L P+E V+R RFGLD RTL E+ N++RE +R+ E K L KL+
Sbjct: 286 LKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 345
Query: 506 HPTRVDYLRQHM 517
HP+R L+ ++
Sbjct: 346 HPSRSKKLKDYL 357
>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 = 144 bits (362), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/252 (36%), Positives = 143/252 (56%), Gaps = 11/252 (4%)
Query: 269 LEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRR 327
+E G A A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++
Sbjct: 114 IEQGDAEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYRKG 170
Query: 328 FRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R P
Sbjct: 171 FKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREPH 225
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPAL 445
EEI + +N+ E+ RE+MK S+ +SL + G ++ + I D D L
Sbjct: 226 PEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPSEAAAFTL 285
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L+ L DVLD+L P+E V+R RFGLD RTL E+ N++RE +R+ E K L KL+
Sbjct: 286 LKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKALRKLR 345
Query: 506 HPTRVDYLRQHM 517
HP+R L+ ++
Sbjct: 346 HPSRSKKLKDYL 357
>gi|163761137|ref|ZP_02168214.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea
phototrophica DFL-43]
gi|162281688|gb|EDQ31982.1| RNA polymerase sigma factor protein (sigma-70) [Hoeflea
phototrophica DFL-43]
Length = 680
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 154/278 (55%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA+ T +S ++ ++ +++ R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 414 LAQETGISISEFRRIVQMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 470
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 471 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 525
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 526 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 585
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 586 LG-----DFIEDKNAILPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 640
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 641 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 678
>gi|383639250|ref|ZP_09951656.1| RNA polymerase sigma factor [Streptomyces chartreusis NRRL 12338]
Length = 512
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 258 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 314
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 315 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 369
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 370 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 429
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 430 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 489
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 490 IESKTMSKLRHPSRSQVLRDYL 511
>gi|357410757|ref|YP_004922493.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
flavogriseus ATCC 33331]
gi|320008126|gb|ADW02976.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
flavogriseus ATCC 33331]
Length = 515
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 261 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 317
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 318 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 372
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 373 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 432
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 433 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 492
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 493 IESKTMSKLRHPSRSQVLRDYL 514
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 99/319 (31%), Positives = 168/319 (52%), Gaps = 18/319 (5%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S +TD+V ++ P+L+ E K +Q M + +++ + +LGREP+ E AE
Sbjct: 14 SPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREPSLEEWAE 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N+S +Q++ L G+ A+ K+I+ NLRLV+ V KKY + DL Q G GL
Sbjct: 74 KANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQK---RNLELLDLIQEGTLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++A+
Sbjct: 131 RGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKAQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + + P + R+ + ++ +SL R G Q+ + + + DG
Sbjct: 186 ELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLLEDDGQ 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E LR ++ +L L P++ V+ RFGL+ + +L ++ L++SRE VR+
Sbjct: 246 SPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQ 305
Query: 496 HEVKGLMKLKHPTRVDYLR 514
E + L DYLR
Sbjct: 306 LERQAL---------DYLR 315
>gi|302537370|ref|ZP_07289712.1| RNA polymerase, subunit sigma [Streptomyces sp. C]
gi|302446265|gb|EFL18081.1| RNA polymerase, subunit sigma [Streptomyces sp. C]
Length = 526
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 272 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 328
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 329 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQ 383
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 384 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 443
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 444 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 503
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 504 IESKTMSKLRHPSRSQVLRDYL 525
>gi|372268985|ref|ZP_09505033.1| RNA polymerase sigma factor RpoD [Alteromonas sp. S89]
Length = 618
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELA-EATNMSAAQVKKC---LEVG 272
+ T W+ +++ + + Q+ ++ R ++ A E + Q+K+ + +G
Sbjct: 314 NETNQDWIPAIIKKKRDYSDALRQVADEIQRAQRKLQQAQEKAQLDVGQIKEINRRMSIG 373
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 374 EARSRRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 430
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 431 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 485
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + +++ ++ R+V+K +K +S+ + G ++ + D +E++NQ P
Sbjct: 486 EELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDQNQSSPVDTA 540
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L A VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 541 TSTGLHDATRSVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 600
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R ++LR +
Sbjct: 601 RKLRHPSRSEHLRSFL 616
>gi|238896571|ref|YP_002921314.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae NTUH-K2044]
gi|402778931|ref|YP_006634477.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae 1084]
gi|419764769|ref|ZP_14291008.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae DSM 30104]
gi|238548896|dbj|BAH65247.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp.
pneumoniae NTUH-K2044]
gi|397741897|gb|EJK89116.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae DSM 30104]
gi|402539880|gb|AFQ64029.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae 1084]
Length = 632
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 173/320 (54%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + ++VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 328 NETSETWFNAAVAMNKPWSEKLLEVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 384
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 385 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 441
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 442 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 496
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 497 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 556
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 557 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 610
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 611 AKALRKLRHPSRSEVLRSFL 630
>gi|435854555|ref|YP_007315874.1| RNA polymerase sigma factor, sigma-70 family [Halobacteroides
halobius DSM 5150]
gi|433670966|gb|AGB41781.1| RNA polymerase sigma factor, sigma-70 family [Halobacteroides
halobius DSM 5150]
Length = 374
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 141/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ KL NLRLV+ + KKY G F DL Q G GLI A+++F+ + ++ STY
Sbjct: 137 AKQKLAAANLRLVVSIAKKYV---GRGMLFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYA 193
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T RVP +++ ++ R L+ EL R PTDEEI +
Sbjct: 194 TWWIRQAITRSIADQARTIRVP-----VHMVETINKLIRVTRHLVQELGREPTDEEIAEE 248
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
++++PE+ +E+ K ++ +SL + G ++ ++ D VE+E +PA LL+
Sbjct: 249 MDLNPEKVQEIKKIAQEPVSLETPIGEEEDSYLG-----DFVEDEKSPEPAAAASRMLLK 303
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
LD V+DSL +E V+ RFG+ RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 304 EQLDGVMDSLTDREKRVLELRFGIGDGRSRTLEEVGKEFGVTRERIRQIEAKALRKLRHP 363
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 364 SRSKKLKDYL 373
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 110/362 (30%), Positives = 184/362 (50%), Gaps = 44/362 (12%)
Query: 186 HEKIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPM 231
+KIE LV + Y+Y+ L +L + +++ V + WL K+
Sbjct: 333 QQKIEYLVDQLYAYNRRLTALGGQMLRLAERHKVSRKDFLDRYVNHELDDGWLDKVSGLD 392
Query: 232 KVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHN 283
K + + + R ++ E+A+AT MS + ++ + + R A+ ++++ N
Sbjct: 393 KKWTAFAAAEGRSVDRIRNEIAEIAQATGMSLGEFRRIVNMVQKGEREARIAKKEMVEAN 452
Query: 284 LRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAII 343
LRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI
Sbjct: 453 LRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 509
Query: 344 RSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYR 402
RS+ + T R+P +++ ++ R + L E R PT EE+ + +++ E+ R
Sbjct: 510 RSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVR 564
Query: 403 EVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLD 455
+VMK +K +SL + G ++ +FI N I VD N L+ + VL
Sbjct: 565 KVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLA 618
Query: 456 SLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQ 515
SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R
Sbjct: 619 SLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRS 678
Query: 516 HM 517
+
Sbjct: 679 FL 680
>gi|428320421|ref|YP_007118303.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
gi|428244101|gb|AFZ09887.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
Length = 334
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 165/313 (52%), Gaps = 10/313 (3%)
Query: 194 REYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE 253
R YS STD V ++ P+L+ E K +Q M ++ K+ L K+ R+ T+ E
Sbjct: 19 RPYS-STDTVRAYLHEIGRVPLLTREEEIVFGKQVQQMMKLIEAKQALAKEWQRDLTNQE 77
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
A ++ ++ + L +GR A+ K+I+ NLRLV+ + KKY + F DL Q G
Sbjct: 78 WAAEMELTEPELSRILHIGRRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTL 134
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GL +++F+P R ++ STY +WIR AI R++ + T R+P I + +I++
Sbjct: 135 GLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPI-----HITEKLNKIKK 189
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
+ EL +L R P+ EI + + P + RE + ++ +SL R G Q+ + + +
Sbjct: 190 VQRELTQQLGRSPSPGEIATALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLED 249
Query: 433 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
+ +N LLR LD ++ L P++ VI RFGL+ + +L ++ LN+SRE
Sbjct: 250 ETASPDNYITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRER 309
Query: 493 VRKHEVKGLMKLK 505
VR+ E + L L+
Sbjct: 310 VRQLEHQALAHLR 322
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 98/297 (32%), Positives = 162/297 (54%), Gaps = 17/297 (5%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q + + + +L K LG EPT+ + AE N+S AQ++ L G+
Sbjct: 23 PLLTHEQEILYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSVAQLQHILHQGQ 82
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 83 LAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 139
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ T R+P I + +I++A+ +L +L R T E+
Sbjct: 140 AYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQLAQQLGRAATMNELAA 194
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPAL---LRL 448
++++P++ RE ++ S+ LSL R G Q+ E ++ + D + Q AL LR
Sbjct: 195 ELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDT----TNSPEQFALNSSLRS 250
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L+ ++ L ++ V+ RFGLD TL +I LNISRE VR+ E + L KL+
Sbjct: 251 DLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 307
>gi|326443878|ref|ZP_08218612.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
Length = 537
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/270 (35%), Positives = 155/270 (57%), Gaps = 15/270 (5%)
Query: 254 LAEATNMSAAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
LA A + A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q
Sbjct: 276 LANADKL-APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQ 331
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GLI A+++F+ + ++ STY +WIR AI R+M + T R+P +++V
Sbjct: 332 EGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVIN 386
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFIN 427
++ R + ++L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF +
Sbjct: 387 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGD 446
Query: 428 GITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLN 487
I D + V + LL+ L VLD+L +E+ V+ RFGL +TL EI
Sbjct: 447 LIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYG 506
Query: 488 ISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K + KL+HP+R LR ++
Sbjct: 507 VTRERIRQIESKTMSKLRHPSRSQVLRDYL 536
>gi|71736970|ref|YP_272918.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
phaseolicola 1448A]
gi|71557523|gb|AAZ36734.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
phaseolicola 1448A]
Length = 616
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|253991033|ref|YP_003042389.1| rna polymerase, sigma(70) factor; regulation of proteins induced a
high temperatures (rna polymerase sigma 70 factor rpod)
[Photorhabdus asymbiotica]
gi|253782483|emb|CAQ85647.1| rna polymerase, sigma(70) factor; regulation of proteins induced a
high temperatures (rna polymerase sigma 70 factor rpod)
[Photorhabdus asymbiotica]
Length = 651
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/299 (32%), Positives = 167/299 (55%), Gaps = 32/299 (10%)
Query: 234 FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRL 286
++V+E++Q+ L R ++ E T ++ QVK + +G A A+ ++++ NLRL
Sbjct: 368 LLEVEEEIQRSLQRLR---QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRL 424
Query: 287 VLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSM 346
V+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 425 VISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 481
Query: 347 TVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVM 405
+ T R+P + ++ ++ R ++L E+ R PT EE+ + + + ++ R+V+
Sbjct: 482 ADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVL 536
Query: 406 KASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLK 458
K +K +S+ + G ++ +FI T +D +E+ LR A DVL L
Sbjct: 537 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES------LRSATHDVLAGLT 590
Query: 459 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 591 AREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 649
>gi|222149282|ref|YP_002550239.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4]
gi|221736266|gb|ACM37229.1| RNA polymerase sigma factor RpoD [Agrobacterium vitis S4]
Length = 681
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 98/298 (32%), Positives = 157/298 (52%), Gaps = 36/298 (12%)
Query: 243 KDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRL 286
KD RE + LA T +S A+ ++ + + R A+ ++++ NLRL
Sbjct: 395 KDFAREENNTIREIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRL 454
Query: 287 VLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSM 346
V+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 455 VISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 511
Query: 347 TVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVM 405
+ T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+V+
Sbjct: 512 ADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVL 566
Query: 406 KASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKP 459
K +K +SL + G ++ + D +E++N P A LR VL SL P
Sbjct: 567 KIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTP 621
Query: 460 KESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 622 REERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 679
>gi|452911225|ref|ZP_21959896.1| RNA polymerase sigma factor RpoD [Kocuria palustris PEL]
gi|452833651|gb|EME36461.1| RNA polymerase sigma factor RpoD [Kocuria palustris PEL]
Length = 544
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 304 GKRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 360
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 361 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 415
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 416 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 475
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 476 LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 535
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 536 SQVLRDYL 543
>gi|387895986|ref|YP_006326283.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens A506]
gi|387163419|gb|AFJ58618.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens A506]
Length = 615
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + EA T ++ A++K + +G
Sbjct: 311 NEVDESWSDALAKGKAKYAEAIGRLQPDIIRCQQKLTALEAETGLTIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|334118426|ref|ZP_08492515.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
gi|333459433|gb|EGK88046.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
Length = 334
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 165/313 (52%), Gaps = 10/313 (3%)
Query: 194 REYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE 253
R YS STD V ++ P+L+ E K +Q M ++ K+ L K+ R+ T+ E
Sbjct: 19 RPYS-STDTVRTYLHEIGRVPLLTREEEIVFGKQVQQMMKLIEAKQALAKEWQRDLTNQE 77
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
A ++ ++ + L +GR A+ K+I+ NLRLV+ + KKY + F DL Q G
Sbjct: 78 WAAEMELTEPELSRILHIGRRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTL 134
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GL +++F+P R ++ STY +WIR AI R++ + T R+P I + +I++
Sbjct: 135 GLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPI-----HITEKLNKIKK 189
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
+ EL +L R P+ EI + + P + RE + ++ +SL R G Q+ + + +
Sbjct: 190 VQRELTQQLGRSPSPGEIAAALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLED 249
Query: 433 DGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
+ +N LLR LD ++ L P++ VI RFGL+ + +L ++ LN+SRE
Sbjct: 250 ETASPDNYITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRER 309
Query: 493 VRKHEVKGLMKLK 505
VR+ E + L L+
Sbjct: 310 VRQLEHQALAHLR 322
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLTHEEEILYAKQVQRLIFLEKIKESLKAKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|294669659|ref|ZP_06734726.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp.
glycolytica ATCC 29315]
gi|291308572|gb|EFE49815.1| hypothetical protein NEIELOOT_01560 [Neisseria elongata subsp.
glycolytica ATCC 29315]
Length = 496
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 165/311 (53%), Gaps = 22/311 (7%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA---- 274
T+ TWL + +V+ E+ Q + + + ELAE + +++ E+ +
Sbjct: 190 TDLTWLENEIAKRRVWANALERFQHAILEKQS--ELAEMEKTAQISIEELKEINKNMQSS 247
Query: 275 ------ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 248 ERETARAKEEMIQANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 304
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R + L E P
Sbjct: 305 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKMNRISRQYLQETGEDPDS 359
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI-NGITDVDGVENENQRQPALL 446
++ + + + ++ R++MK +K +S+ + G + + + I DV+ V + + L
Sbjct: 360 AKLAELMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDVNNVAPADAAMYSSL 419
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
R DVL+SL P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 420 REVTADVLESLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 479
Query: 507 PTRVDYLRQHM 517
PTR D L+ +
Sbjct: 480 PTRSDRLKSFL 490
>gi|229916320|ref|YP_002884966.1| RpoD subfamily RNA polymerase sigma-70 subunit [Exiguobacterium sp.
AT1b]
gi|229467749|gb|ACQ69521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium
sp. AT1b]
Length = 364
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 102/316 (32%), Positives = 173/316 (54%), Gaps = 33/316 (10%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
+D + +PP + K+ P+++++ K++GR V+L A + + +
Sbjct: 78 VDLNDLSVPPGI---------KINDPVRMYL-------KEIGR----VDLLSAKDET--E 115
Query: 265 VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ K +E G A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 116 LAKRIEQGDEEAKKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 172
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 173 YMKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 227
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R P+ EEI + + ++PE+ RE++K ++ +SL + G + + I D D + ++
Sbjct: 228 REPSPEEIAKEMELTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDAMAPQDAA 287
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 288 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 347
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 348 RKLRHPSRSKRLKDFL 363
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 162/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L EP+ E A
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEVLAKKLDHEPSLPEWAAH 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S +VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VNQSETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R P+ EI + + + P + RE + ++ +SL R G Q+ + + + +G
Sbjct: 187 LAQKLGRSPSPTEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDEGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|206576865|ref|YP_002236518.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342]
gi|288933503|ref|YP_003437562.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22]
gi|290511438|ref|ZP_06550807.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55]
gi|206565923|gb|ACI07699.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae 342]
gi|288888232|gb|ADC56550.1| RNA polymerase, sigma 70 subunit, RpoD [Klebsiella variicola At-22]
gi|289776431|gb|EFD84430.1| RNA polymerase primary sigma factor [Klebsiella sp. 1_1_55]
Length = 613
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 173/320 (54%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + ++VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 309 NETSETWFNAAVAMNKPWSEKLLEVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 365
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 366 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 477
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 478 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 537
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 538 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 591
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 592 AKALRKLRHPSRSEVLRSFL 611
>gi|152971991|ref|YP_001337100.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae MGH 78578]
gi|330003818|ref|ZP_08304768.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3]
gi|365140532|ref|ZP_09346587.1| RNA polymerase sigma factor rpoD [Klebsiella sp. 4_1_44FAA]
gi|378980765|ref|YP_005228906.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae HS11286]
gi|386036624|ref|YP_005956537.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae KCTC 2242]
gi|424832463|ref|ZP_18257191.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae Ecl8]
gi|424931707|ref|ZP_18350079.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp.
pneumoniae KpQ3]
gi|425074852|ref|ZP_18477955.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW1]
gi|425083268|ref|ZP_18486365.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW2]
gi|425085488|ref|ZP_18488581.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW3]
gi|425093351|ref|ZP_18496435.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW5]
gi|428931828|ref|ZP_19005418.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae JHCK1]
gi|449047215|ref|ZP_21730713.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae hvKP1]
gi|150956840|gb|ABR78870.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp.
pneumoniae MGH 78578]
gi|328536802|gb|EGF63114.1| RNA polymerase sigma factor RpoD [Klebsiella sp. MS 92-3]
gi|339763752|gb|AEJ99972.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae KCTC 2242]
gi|363653848|gb|EHL92797.1| RNA polymerase sigma factor rpoD [Klebsiella sp. 4_1_44FAA]
gi|364520176|gb|AEW63304.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae HS11286]
gi|405595055|gb|EKB68445.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW1]
gi|405599587|gb|EKB72763.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW2]
gi|405607520|gb|EKB80489.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW3]
gi|405610896|gb|EKB83685.1| RNA polymerase sigma factor rpoD [Klebsiella pneumoniae subsp.
pneumoniae WGLW5]
gi|407805894|gb|EKF77145.1| RNA polymerase sigma factor [Klebsiella pneumoniae subsp.
pneumoniae KpQ3]
gi|414709905|emb|CCN31609.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae Ecl8]
gi|426307762|gb|EKV69838.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae JHCK1]
gi|448877467|gb|EMB12431.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae hvKP1]
Length = 613
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 173/320 (54%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + ++VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 309 NETSETWFNAAVAMNKPWSEKLLEVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 365
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 366 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 477
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 478 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 537
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 538 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 591
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 592 AKALRKLRHPSRSEVLRSFL 611
>gi|66047868|ref|YP_237709.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae
B728a]
gi|424068239|ref|ZP_17805695.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. avellanae
str. ISPaVe013]
gi|440744098|ref|ZP_20923404.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP39023]
gi|63258575|gb|AAY39671.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas syringae pv.
syringae B728a]
gi|407998580|gb|EKG38986.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. avellanae
str. ISPaVe013]
gi|440374554|gb|ELQ11282.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP39023]
Length = 616
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|257483092|ref|ZP_05637133.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci
str. ATCC 11528]
gi|289627702|ref|ZP_06460656.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi
str. NCPPB 3681]
gi|289649021|ref|ZP_06480364.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi
str. 2250]
gi|416014366|ref|ZP_11562193.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. B076]
gi|416021896|ref|ZP_11567187.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. race 4]
gi|422406475|ref|ZP_16483503.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. race 4]
gi|422583649|ref|ZP_16658770.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi
str. 0893_23]
gi|422595506|ref|ZP_16669793.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
lachrymans str. M301315]
gi|422607542|ref|ZP_16679540.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. mori
str. 301020]
gi|422682334|ref|ZP_16740600.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci
str. ATCC 11528]
gi|298160137|gb|EFI01166.1| RNA polymerase sigma factor RpoD [Pseudomonas savastanoi pv.
savastanoi NCPPB 3335]
gi|320325995|gb|EFW82053.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. B076]
gi|320332070|gb|EFW88006.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. race 4]
gi|330868477|gb|EGH03186.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aesculi
str. 0893_23]
gi|330881700|gb|EGH15849.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. glycinea
str. race 4]
gi|330891182|gb|EGH23843.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. mori
str. 301020]
gi|330985810|gb|EGH83913.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
lachrymans str. M301315]
gi|331011674|gb|EGH91730.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tabaci
str. ATCC 11528]
Length = 616
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/308 (31%), Positives = 166/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+TDLV +++ P+L+ E + K +Q +++E L LG EPT E A A+
Sbjct: 7 ATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRSTALHEIREGLAAQLGHEPTVEEWAAAS 66
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
++ +++ + + VG A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 67 DIEVSELNQAIAVGEIAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGSIGMQRG 123
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ + T R+P I + +I++A+ +L
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPI-----HITEKLNKIKKAQRQL 178
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R PT E+ Q ++++P++ RE ++ ++ LSL R G + + + + G
Sbjct: 179 SQGLGRAPTVAELSQELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDTGATP 238
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ L L+ ++ L P++ VI RFGL TL +I LNISRE VR+ E
Sbjct: 239 EDFVMQTSLSYDLERIMSELTPQQKEVISLRFGLVDGQSLTLAKIGEVLNISRERVRQIE 298
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 299 REALNKLR 306
>gi|302542036|ref|ZP_07294378.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus
ATCC 53653]
gi|302459654|gb|EFL22747.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus
ATCC 53653]
Length = 502
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 151/262 (57%), Gaps = 14/262 (5%)
Query: 262 AAQVKKCLEV----GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
A ++K+ LE+ GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI
Sbjct: 248 APKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIR 304
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A+++F+ + ++ STY +WIR AI R+M + T R+P +++V ++ R + +
Sbjct: 305 AVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQ 359
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
+L +L R PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V
Sbjct: 360 MLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAV 419
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+ LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+
Sbjct: 420 VPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQ 479
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K + KL+HP+R LR ++
Sbjct: 480 IESKTMSKLRHPSRSQVLRDYL 501
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 100/295 (33%), Positives = 162/295 (54%), Gaps = 22/295 (7%)
Query: 225 FKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNL 284
K+ P+++++ KE + DL ++ELA K+ LE A+ +L + NL
Sbjct: 104 IKVADPVRMYL--KEIGRVDLLTADEEIELA----------KRILEGDELAKQELAEANL 151
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + K+Y G F DL Q G GL+ A+++F+ + F+ STY +WIR AI R
Sbjct: 152 RLVVSIAKRYV---GRGMSFLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATWWIRQAITR 208
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
++ + T R+P + T VR +QR +LL +L R PT EEI +++ E+ R+
Sbjct: 209 AIADQARTIRIPVHMVETINKLVR--VQR---QLLQDLGREPTPEEIGAEMDLPTEKVRD 263
Query: 404 VMKASKPILSLHSRHGVTQEEFINGITDVDG-VENENQRQPALLRLALDDVLDSLKPKES 462
++K ++ +SL + G + + + DG + E+ ALLR L+DVLD+L +E
Sbjct: 264 ILKIAQEPVSLETPIGEEDDSHLGDFIEDDGALSPEDFTASALLREQLEDVLDTLTDREE 323
Query: 463 LVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
V+R RFGLD RTL ++ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 324 NVLRLRFGLDDGNIRTLEQVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 378
>gi|422618503|ref|ZP_16687200.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. japonica
str. M301072]
gi|422668614|ref|ZP_16728469.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aptata
str. DSM 50252]
gi|424074249|ref|ZP_17811659.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. avellanae
str. ISPaVe037]
gi|440721002|ref|ZP_20901412.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP34876]
gi|440727203|ref|ZP_20907442.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP34881]
gi|443641935|ref|ZP_21125785.1| RNA polymerase sigma factor RpoD (sig-70) [Pseudomonas syringae pv.
syringae B64]
gi|330898880|gb|EGH30299.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. japonica
str. M301072]
gi|330980978|gb|EGH79081.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aptata
str. DSM 50252]
gi|407994754|gb|EKG35313.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. avellanae
str. ISPaVe037]
gi|440364397|gb|ELQ01529.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP34881]
gi|440364775|gb|ELQ01897.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae BRIP34876]
gi|443281952|gb|ELS40957.1| RNA polymerase sigma factor RpoD (sig-70) [Pseudomonas syringae pv.
syringae B64]
Length = 616
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|319651585|ref|ZP_08005712.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2]
gi|317396652|gb|EFV77363.1| RNA polymerase sigma factor [Bacillus sp. 2_A_57_CT2]
Length = 374
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/315 (32%), Positives = 166/315 (52%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V+L A A
Sbjct: 88 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAEE-EIAL 126
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 127 ANRIEEGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 183
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 184 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 238
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++++P++ RE++K ++ +SL + G + + I D D
Sbjct: 239 EPTPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSEHAA 298
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 299 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 358
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 359 KLRHPSRSKRLKDFL 373
>gi|222157794|ref|YP_002557933.1| RNA polymerase sigma factor rpoD [Escherichia coli LF82]
gi|222034799|emb|CAP77541.1| RNA polymerase sigma factor rpoD [Escherichia coli LF82]
Length = 613
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 156/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 346 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 402
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ V + T R+P + +
Sbjct: 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAVQARTIRIPVHM-----I 457
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 458 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 517
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 518 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 571
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 572 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 611
>gi|409991974|ref|ZP_11275193.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca]
gi|409937168|gb|EKN78613.1| RNA polymerase sigma factor [Arthrospira platensis str. Paraca]
Length = 332
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 91/293 (31%), Positives = 160/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++V+++L K+L R+PT E + +S +++ + GR
Sbjct: 36 PLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGLSESEMTDIINRGR 95
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 96 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 152
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ +S T R+P I + +I+R + EL + R T EI +
Sbjct: 153 AYWWIRQAITRAIAQNSRTIRLPI-----HITEKLNKIKRVQRELFQQYGRNATPTEIAK 207
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+++ P + R+ + AS+ +SL R G Q+ + + + + ++ LLR L D
Sbjct: 208 ALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADSYVTQQLLRQDLKD 267
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ R+GL+ + +L ++ +NISRE VR+ E + L L+
Sbjct: 268 MMADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLR 320
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 90/263 (34%), Positives = 149/263 (56%), Gaps = 11/263 (4%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 116 TNEEEQELALAVEAGDPEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 172
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + T ++ R +
Sbjct: 173 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI-----NKLVREQR 227
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
LL EL + PT E+I + ++++PE+ RE++K ++ +SL + G + + + + +
Sbjct: 228 NLLQELGQDPTPEQIAERMDMTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVI 287
Query: 436 ENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
EN + +LR LD+VLD+L +E V+R RFGLD RTL ++ N++RE +R
Sbjct: 288 ENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIR 347
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KL+HP+R LR +
Sbjct: 348 QIEAKALRKLRHPSRSKPLRDFI 370
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 90/263 (34%), Positives = 149/263 (56%), Gaps = 11/263 (4%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 116 TNEEEQELALAVEAGDPEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 172
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + T ++ R +
Sbjct: 173 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI-----NKLVREQR 227
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
LL EL + PT E+I + ++++PE+ RE++K ++ +SL + G + + + + +
Sbjct: 228 NLLQELGQDPTPEQIAERMDMTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVI 287
Query: 436 ENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
EN + +LR LD+VLD+L +E V+R RFGLD RTL ++ N++RE +R
Sbjct: 288 ENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIR 347
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KL+HP+R LR +
Sbjct: 348 QIEAKALRKLRHPSRSKPLRDFI 370
>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 = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 96/280 (34%), Positives = 152/280 (54%), Gaps = 21/280 (7%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++G+ P D E+ A M V+ A+ +L + NLRLV+ + K+Y
Sbjct: 95 KEIGKVPLLSADEEIELAKRMEKGDVE--------AKKRLAEANLRLVVSIAKRYV---G 143
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 144 RGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 200
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL EL + P EEI + +N+ E+ RE+MK S+ +SL +
Sbjct: 201 --VHMVETINKLIRVSRQLLQELGKEPQPEEIAKEMNMPVEKVREIMKISQEPVSLETPI 258
Query: 419 GVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + I D D LL+ L DVLD+L P+E V+R RFGLD R
Sbjct: 259 GEEEDSHLGDFIPDDDAPAPSEAAAFTLLKEQLIDVLDTLTPREEKVLRLRFGLDDGRAR 318
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ N++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 319 TLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 358
>gi|410094092|ref|ZP_11290547.1| RNA polymerase sigma factor RpoD [Pseudomonas viridiflava
UASWS0038]
gi|409758505|gb|EKN43800.1| RNA polymerase sigma factor RpoD [Pseudomonas viridiflava
UASWS0038]
Length = 616
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|172056869|ref|YP_001813329.1| RpoD family RNA polymerase sigma factor [Exiguobacterium sibiricum
255-15]
gi|407476679|ref|YP_006790556.1| RNA polymerase sigma factor rpoD [Exiguobacterium antarcticum B7]
gi|171989390|gb|ACB60312.1| RNA polymerase, sigma 70 subunit, RpoD family [Exiguobacterium
sibiricum 255-15]
gi|407060758|gb|AFS69948.1| RNA polymerase sigma factor rpoD [Exiguobacterium antarcticum B7]
Length = 361
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 103/314 (32%), Positives = 167/314 (53%), Gaps = 31/314 (9%)
Query: 206 DWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
D + +PP + K+ P+++++ KE + DL +VELA+ + +
Sbjct: 76 DLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLNAEDEVELAKRIEQNDEEA 124
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
KK +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 125 KK----------RLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDYT 171
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 172 KGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGRE 226
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQP 443
PT EEI + + I+PE+ RE++K ++ +SL + G + + I D D ++
Sbjct: 227 PTPEEISKEMEITPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATAPQDAAAY 286
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L K
Sbjct: 287 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 346
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R L+ +
Sbjct: 347 LRHPSRSKRLKDFL 360
>gi|50954703|ref|YP_061991.1| RNA polymerase sigma factor [Leifsonia xyli subsp. xyli str.
CTCB07]
gi|50951185|gb|AAT88886.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli
str. CTCB07]
Length = 440
Score = 143 bits (361), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 146/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A++ L+ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + F+ S
Sbjct: 200 GQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFS 256
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 257 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 311
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D++ V + +L+
Sbjct: 312 SKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDIEAVVPADAVGFTMLQKQ 371
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ +LDSL +E+ VIR RFGL +TL +I ++RE +R+ E K + KL+HP+R
Sbjct: 372 LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSR 431
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 432 SQSLRDYL 439
>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 = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 162/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REP+ E A+
Sbjct: 40 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMSLLDAKEALAKKLEREPSLPEWADH 99
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+ S +VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 100 VHQSETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 156
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 157 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 211
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R P+ EI + + + P + RE + ++ +SL R G Q+ + + + +G
Sbjct: 212 LAQTLGRSPSPAEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDEGPS 271
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+ +L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 272 PEYYTTQEFLRQDLNTLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 331
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 332 EHQALAHLR 340
>gi|402700981|ref|ZP_10848960.1| RNA polymerase sigma factor RpoD [Pseudomonas fragi A22]
Length = 615
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + EA T + A++K + +G
Sbjct: 311 NEVDESWSDALAKGKSKYAEAIGRLQPDIIRCQQKLSALEAETGLKIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|302185957|ref|ZP_07262630.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. syringae
642]
Length = 616
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|291566702|dbj|BAI88974.1| group 2 RNA polymerase sigma factor SigB [Arthrospira platensis
NIES-39]
Length = 334
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 91/293 (31%), Positives = 160/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++V+++L K+L R+PT E + +S +++ + GR
Sbjct: 38 PLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGLSESEMTDIINRGR 97
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 98 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 154
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ +S T R+P I + +I+R + EL + R T EI +
Sbjct: 155 AYWWIRQAITRAIAQNSRTIRLPI-----HITEKLNKIKRVQRELFQQYGRNATPTEIAK 209
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+++ P + R+ + AS+ +SL R G Q+ + + + + ++ LLR L D
Sbjct: 210 ALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADSYVTQQLLRQDLKD 269
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ R+GL+ + +L ++ +NISRE VR+ E + L L+
Sbjct: 270 MMADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLR 322
>gi|262042263|ref|ZP_06015428.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
rhinoscleromatis ATCC 13884]
gi|419972133|ref|ZP_14487562.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH1]
gi|419978128|ref|ZP_14493425.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH2]
gi|419984868|ref|ZP_14500012.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH4]
gi|419989084|ref|ZP_14504061.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH5]
gi|419995212|ref|ZP_14510019.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH6]
gi|420001428|ref|ZP_14516084.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH7]
gi|420007037|ref|ZP_14521532.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH8]
gi|420012916|ref|ZP_14527228.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH9]
gi|420018639|ref|ZP_14532835.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH10]
gi|420026610|ref|ZP_14540611.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH11]
gi|420029567|ref|ZP_14543396.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH12]
gi|420038420|ref|ZP_14552067.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH14]
gi|420041388|ref|ZP_14554885.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH16]
gi|420047357|ref|ZP_14560674.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH17]
gi|420052858|ref|ZP_14566038.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH18]
gi|420061427|ref|ZP_14574416.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH19]
gi|420064813|ref|ZP_14577621.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH20]
gi|420074140|ref|ZP_14586755.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH21]
gi|420077431|ref|ZP_14589896.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH22]
gi|420082264|ref|ZP_14594563.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH23]
gi|421910906|ref|ZP_16340677.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST258-K26BO]
gi|421916329|ref|ZP_16345909.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST258-K28BO]
gi|428148019|ref|ZP_18995917.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST512-K30BO]
gi|428938666|ref|ZP_19011790.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae VA360]
gi|259040327|gb|EEW41433.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
rhinoscleromatis ATCC 13884]
gi|397351961|gb|EJJ45042.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH1]
gi|397352411|gb|EJJ45490.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH2]
gi|397353186|gb|EJJ46261.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH4]
gi|397367965|gb|EJJ60573.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH6]
gi|397369916|gb|EJJ62508.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH5]
gi|397372319|gb|EJJ64815.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH7]
gi|397380827|gb|EJJ73005.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH9]
gi|397385149|gb|EJJ77253.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH8]
gi|397389882|gb|EJJ81804.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH10]
gi|397394980|gb|EJJ86695.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH11]
gi|397402778|gb|EJJ94373.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH12]
gi|397404337|gb|EJJ95851.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH14]
gi|397417143|gb|EJK08312.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH17]
gi|397418995|gb|EJK10149.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH16]
gi|397424990|gb|EJK15878.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH18]
gi|397430931|gb|EJK21615.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH19]
gi|397432651|gb|EJK23308.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH20]
gi|397436453|gb|EJK27040.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH21]
gi|397445942|gb|EJK36171.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH22]
gi|397452319|gb|EJK42390.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae KPNIH23]
gi|410115281|emb|CCM83302.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST258-K26BO]
gi|410121395|emb|CCM88534.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST258-K28BO]
gi|426305368|gb|EKV67492.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae VA360]
gi|427542077|emb|CCM92055.1| RNA polymerase sigma factor RpoD [Klebsiella pneumoniae subsp.
pneumoniae ST512-K30BO]
Length = 611
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 173/320 (54%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + ++VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 307 NETSETWFNAAVAMNKPWSEKLLEVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 363
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 364 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 420
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 421 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 475
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 476 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 535
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 536 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 589
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 590 AKALRKLRHPSRSEVLRSFL 609
>gi|357974097|ref|ZP_09138068.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. KC8]
Length = 672
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 94/280 (33%), Positives = 154/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+ +AT MS + ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 405 EIGQATGMSLPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 461
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 462 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 516
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 517 ETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 576
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 577 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 630
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 631 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 670
>gi|329298675|ref|ZP_08256011.1| RNA polymerase sigma factor RpoD [Plautia stali symbiont]
Length = 610
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 173/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + ++++KD+ R + ++ E T ++ QVK + +G
Sbjct: 306 NETSESWFKTALAMNKPWSEKLQEVEKDVMRSLQKLLQIEEETGLTIEQVKDINRRMSIG 365
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 366 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 422
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 423 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 477
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 478 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 536
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 537 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 591
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 592 LRKLRHPSRSEVLRSFL 608
>gi|392952342|ref|ZP_10317897.1| RNA polymerase sigma factor [Hydrocarboniphaga effusa AP103]
gi|391861304|gb|EIT71832.1| RNA polymerase sigma factor [Hydrocarboniphaga effusa AP103]
Length = 616
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 84/248 (33%), Positives = 140/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 375 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 431
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 432 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 486
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLA 449
+ + ++ R+V+K +K +S+ + G ++ + I D V + L A
Sbjct: 487 AVKMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTAAVSPLESATSSSLAEA 546
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
+L SL P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R
Sbjct: 547 THQILASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 606
Query: 510 VDYLRQHM 517
+YLR +
Sbjct: 607 ANYLRSFL 614
>gi|88856913|ref|ZP_01131565.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1]
gi|88813881|gb|EAR23751.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1]
Length = 454
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A++ L+ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + F+ S
Sbjct: 214 GQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFS 270
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 271 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 325
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 326 SRELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQ 385
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ +LDSL +E+ VIR RFGL +TL +I ++RE +R+ E K + KL+HP+R
Sbjct: 386 LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSR 445
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 446 SQSLRDYL 453
>gi|381397349|ref|ZP_09922761.1| RNA polymerase sigma factor RpoD [Microbacterium laevaniformans
OR221]
gi|380775334|gb|EIC08626.1| RNA polymerase sigma factor RpoD [Microbacterium laevaniformans
OR221]
Length = 443
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A++ L+ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + F+ S
Sbjct: 203 GQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFS 259
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 260 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 314
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 315 SRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQRQ 374
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ +LDSL +E+ VIR RFGL +TL +I ++RE +R+ E K + KL+HP+R
Sbjct: 375 LESLLDSLSEREAGVIRMRFGLGDGQPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSR 434
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 435 SQSLRDYL 442
>gi|260753821|ref|YP_003226714.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis
NCIMB 11163]
gi|258553184|gb|ACV76130.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis NCIMB 11163]
Length = 671
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 106/360 (29%), Positives = 190/360 (52%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
+IE LV + Y+Y++ L +L+ + +++ + + E W+ ++ + K
Sbjct: 324 RIEFLVEQLYNYNSRLRTLNGQMLRLAERYKVPRDSFLNAYLGNEMEEGWVERVSKIDKK 383
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ + + R ++V E+A+ T M+ ++++ + + R A+ ++++ NLR
Sbjct: 384 WANFTTSEAESIERIRSEVAEIAQVTGMTLKELRRIVTMVQKGEREARIAKTEMVEANLR 443
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 444 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 500
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R ++L E+ R PT EE+ + +++ E+ R+V
Sbjct: 501 IADQARTIRIP-----VHMIETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKV 555
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N I VD N L+ + VL SL
Sbjct: 556 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASL 609
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 610 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 669
>gi|153214921|ref|ZP_01949704.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587]
gi|262151177|ref|ZP_06028315.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1]
gi|421338229|ref|ZP_15788667.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-20A2]
gi|124114994|gb|EAY33814.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 1587]
gi|262031008|gb|EEY49634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae INDRE 91/1]
gi|395945349|gb|EJH56015.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-20A2]
Length = 595
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 297 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 355
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 356 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 412
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 413 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 467
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 468 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 522
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 523 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 582
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 583 PSRSEVLRSFL 593
>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 = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 92/293 (31%), Positives = 154/293 (52%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E L K +Q + + + L L REPT E A A +S A++ + G
Sbjct: 2 PLLTHEEEILLGKQVQKLMSLIAIHSSLVDTLDREPTRTEWAAAGGISEAELAAIVTAGE 61
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A++++++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 62 QAKHRMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPSKGYRFSTY 118
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ + + R PT EI Q
Sbjct: 119 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQFTQQHGRTPTASEIAQ 173
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ ++ RE + S+ LSL + G Q+ + + + DG ++ + L+ L
Sbjct: 174 ATGFTIKQVREYLDRSRQPLSLDLKVGDNQDTQLGDLLEDDGQTPDDYATASSLKSDLKR 233
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGL+ + TL +I L+ISRE VR+ E + L KL+
Sbjct: 234 IMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLR 286
>gi|387769884|ref|ZP_10126078.1| RNA polymerase sigma factor RpoD [Pasteurella bettyae CCUG 2042]
gi|386905640|gb|EIJ70399.1| RNA polymerase sigma factor RpoD [Pasteurella bettyae CCUG 2042]
Length = 618
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 105/352 (29%), Positives = 180/352 (51%), Gaps = 39/352 (11%)
Query: 189 IEKLVREYSYSTDLVSLDWKKMKIPPVLSS-----TEHTWLFKLMQPMKVFVQVKEQLQK 243
I K VR +++D+ KM L + WL KL+ K FV+ +Q
Sbjct: 281 IMKRVRTEERQIQRLAVDYAKMPKEYFLKAFIGKENSEAWLDKLLDGKKPFVEKLQQRAP 340
Query: 244 DL----GREPTDVELAEATNMSAAQVKKCLE-------VGRAARNKLIKHNLRLVLFVIK 292
D+ GR ++ + TN++ Q++ E R A+ ++++ NLRLV+ + K
Sbjct: 341 DIRISIGRLQ---QIEQDTNLTVQQIRDIGERIAQGELKARRAKKEMVEANLRLVISIAK 397
Query: 293 KYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT 352
KY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T
Sbjct: 398 KYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 454
Query: 353 -RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPI 411
R+P +++ ++ R ++L E+ R T EE+ + + + ++ R+V+K +K
Sbjct: 455 IRIP-----VHMIETINKLNRISRQMLQEMGREATPEELAERMGMPEDKVRKVLKIAKEP 509
Query: 412 LSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVI 465
+S+ + G + + D +E+ P L+ A +VL+ L P+E+ V+
Sbjct: 510 ISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQSLKAATHEVLEGLTPREAKVL 564
Query: 466 RQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 565 RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFL 616
>gi|126727888|ref|ZP_01743716.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150]
gi|126702829|gb|EBA01934.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2150]
Length = 661
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 147/262 (56%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + RAA+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 412 QVQKGEKEARAAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 468
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 469 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKLVRTGRQMLHEIG 523
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 524 REPTPEELAKKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 583
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 584 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 637
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 638 IEAKALRKLKHPSRSRKLRSFL 659
>gi|153826548|ref|ZP_01979215.1| RNA polymerase sigma factor RpoD, partial [Vibrio cholerae MZO-2]
gi|149739640|gb|EDM53854.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-2]
Length = 302
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 4 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 62
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 63 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 119
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 120 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 174
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 175 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 229
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 230 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 289
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 290 PSRSEVLRSFL 300
>gi|373859068|ref|ZP_09601800.1| RNA polymerase sigma factor RpoD [Bacillus sp. 1NLA3E]
gi|372451159|gb|EHP24638.1| RNA polymerase sigma factor RpoD [Bacillus sp. 1NLA3E]
Length = 375
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 108/339 (31%), Positives = 177/339 (52%), Gaps = 36/339 (10%)
Query: 181 DSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQ 240
DS DE L +E D D + +PP + K+ P+++++
Sbjct: 70 DSDDEDPSGPDLSKE-----DEEEFDLNDLSVPPGV---------KINDPVRMYL----- 110
Query: 241 LQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFAN 300
K++GR D+ AE A ++++ E A+ +L + NLRLV+ + K+Y
Sbjct: 111 --KEIGR--VDLLSAEEEINLATRIEEGDE---EAKRRLAEANLRLVVSIAKRYV---GR 160
Query: 301 GPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLE 359
G F DL Q G GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P +
Sbjct: 161 GMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMV 220
Query: 360 STSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHG 419
T +R +QR +LL +L R PT EEI + ++++P++ RE++K ++ +SL + G
Sbjct: 221 ETINKLIR--VQR---QLLQDLGREPTPEEIAEDMDLTPDKVREILKIAQEPVSLETPIG 275
Query: 420 VTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+ + I D D LL+ L+DVLD+L +E V+R RFGLD RT
Sbjct: 276 EEDDSHLGDFIEDQDATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRT 335
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 336 LEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 374
>gi|167031434|ref|YP_001666665.1| RNA polymerase sigma factor RpoD [Pseudomonas putida GB-1]
gi|166857922|gb|ABY96329.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida GB-1]
Length = 616
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|339485320|ref|YP_004699848.1| RNA polymerase sigma factor RpoD [Pseudomonas putida S16]
gi|431800439|ref|YP_007227342.1| RNA polymerase sigma factor RpoD [Pseudomonas putida HB3267]
gi|338836163|gb|AEJ10968.1| RNA polymerase sigma factor RpoD [Pseudomonas putida S16]
gi|430791204|gb|AGA71399.1| RNA polymerase sigma factor RpoD [Pseudomonas putida HB3267]
gi|451775006|gb|AGF50254.1| RNA polymerase sigma-70 factor RpoD [Pseudomonas putida]
Length = 616
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|302024138|ref|ZP_07249349.1| RNA polymerase sigma factor RpoD [Streptococcus suis 05HAS68]
Length = 372
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 90/263 (34%), Positives = 149/263 (56%), Gaps = 11/263 (4%)
Query: 258 TNMSAAQVKKCLEVGR-AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN ++ +E G A+ +L + NLRLV+ + K+Y G +F DL Q G GL+
Sbjct: 116 TNEEEQELALAVEAGDPEAKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLM 172
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A+D+F+ + F+ STY +WIR AI R++ + T R+P + T ++ R +
Sbjct: 173 KAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI-----NKLVREQR 227
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
LL EL + PT E+I + ++++PE+ RE++K ++ +SL + G + + + + +
Sbjct: 228 NLLQELGQDPTPEQIAERMDMTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEII 287
Query: 436 ENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
EN + +LR LD+VLD+L +E V+R RFGLD RTL ++ N++RE +R
Sbjct: 288 ENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIR 347
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KL+HP+R LR +
Sbjct: 348 QIEAKALRKLRHPSRSKPLRDFI 370
>gi|325273045|ref|ZP_08139355.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51]
gi|324101818|gb|EGB99354.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. TJI-51]
Length = 616
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri]
gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri]
Length = 525
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 103/329 (31%), Positives = 177/329 (53%), Gaps = 21/329 (6%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR--EPTDVELAE 256
STD + K + +L++ + L K +Q + ++E L ++ G E ++ + A
Sbjct: 199 STDSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLIEETGPGVELSESQWAA 258
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A ++ + +++ L G+AA+N++I+ NLRLV+ + KKY FQDL Q G GLI
Sbjct: 259 AAGLNVSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYAN---TNMSFQDLIQEGCVGLI 315
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
++F+ +R ++ STY +WIR A+ RS++ S T R+P L ++ I + +
Sbjct: 316 RGAEKFDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHL-----FEIISRISKMEQ 370
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
+ R PT EEI + +S E+ ++ KA++ +SL G + G T D +
Sbjct: 371 KFALYNGRPPTLEEIASEMEMSVEKITQIKKAAQAPVSLAQTMGGENK----GRTIEDTL 426
Query: 436 ENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNIS 489
+ N P +LL+ L++VL++L P+E V+R R+GLD +TL EI +++
Sbjct: 427 IDANAEGPEKVSGKSLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVT 486
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLRQHMV 518
RE +R+ E K L KLK P+R L+++ V
Sbjct: 487 RERIRQIEAKALRKLKQPSRNQVLQEYFV 515
>gi|114330327|ref|YP_746549.1| RNA polymerase sigma factor RpoD [Nitrosomonas eutropha C91]
gi|114307341|gb|ABI58584.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrosomonas eutropha C91]
Length = 749
Score = 143 bits (360), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 85/248 (34%), Positives = 141/248 (56%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R+A+ ++ + NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 505 ARSAKREMTEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 561
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P + ++ ++ R ++L E + P +
Sbjct: 562 TYATWWIRQAITRSIADQARTIRIPVHM-----IETINKMNRISRQILQETGQEPEPAVL 616
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLA 449
+ + ++ E+ R+++K SK +S+ + G ++ + I DV +E + A LR
Sbjct: 617 AEKMEMTEEKIRKILKISKEPISMETPIGDDEDSHLGDFIEDVSTMEPADAAIYAGLRTV 676
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
DVLDSL P+E+ V+R RFG++ D TL E+ +++RE +R+ E K L KL+HP R
Sbjct: 677 TKDVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPAR 736
Query: 510 VDYLRQHM 517
D LR +
Sbjct: 737 SDRLRSFL 744
>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 = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/309 (31%), Positives = 160/309 (51%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REPT E A
Sbjct: 16 FTADMVRTYLREIGRVPLLTREQEIIYGKQVQQMMSVLDAKEALAKKLHREPTVQEWASH 75
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
MS A + + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 76 VKMSEADLHDTVRRGQRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTMGLER 132
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ + E
Sbjct: 133 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKIQRE 187
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R P+ EI + + P + RE + ++ +SL R G Q+ + + + +G
Sbjct: 188 LAQRLGRSPSPAEIATELELEPSQIREYLNLARQPVSLDVRVGDNQDTELQDLLEDEGPS 247
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+ LR LD ++ L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 248 PEHYMTQESLRQDLDHLMAELTPQQREVLNLRFGLEDGNELSLAKVGERLNLSRERVRQL 307
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 308 EHQALAHLR 316
>gi|56552519|ref|YP_163358.1| RNA polymerase sigma factor RpoD [Zymomonas mobilis subsp. mobilis
ZM4]
gi|384412419|ref|YP_005621784.1| RNA polymerase sigma-70 subunit RpoD [Zymomonas mobilis subsp.
mobilis ATCC 10988]
gi|56544093|gb|AAV90247.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis ZM4]
gi|335932793|gb|AEH63333.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis ATCC 10988]
Length = 671
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 106/360 (29%), Positives = 190/360 (52%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
+IE LV + Y+Y++ L +L+ + +++ + + E W+ ++ + K
Sbjct: 324 RIEFLVEQLYNYNSRLRTLNGQMLRLAERYKVPRDSFLNAYLGNEMEEGWVERVSKIDKK 383
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ + + R ++V E+A+ T M+ ++++ + + R A+ ++++ NLR
Sbjct: 384 WANFTTSEAESIERIRSEVAEIAQVTGMTLKELRRIVTMVQKGEREARIAKTEMVEANLR 443
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 444 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 500
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R ++L E+ R PT EE+ + +++ E+ R+V
Sbjct: 501 IADQARTIRIP-----VHMIETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKV 555
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N I VD N L+ + VL SL
Sbjct: 556 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASL 609
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 610 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 669
>gi|114570679|ref|YP_757359.1| RNA polymerase sigma factor RpoD [Maricaulis maris MCS10]
gi|114341141|gb|ABI66421.1| RNA polymerase, sigma 70 subunit, RpoD [Maricaulis maris MCS10]
Length = 710
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/260 (35%), Positives = 144/260 (55%), Gaps = 20/260 (7%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 462 VQKGEREARVAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 518
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 519 RRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGR 573
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT EE+ + + + E+ R+VMK +K +SL + G ++ + D +E++N P
Sbjct: 574 EPTPEELAEKLAMPLEKVRKVMKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAVLP 628
Query: 444 ------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E
Sbjct: 629 IDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIE 688
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KLKHP+R LR +
Sbjct: 689 AKALRKLKHPSRSRKLRSFL 708
>gi|162420372|ref|YP_001604920.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola]
gi|162353187|gb|ABX87135.1| RNA polymerase sigma factor RpoD [Yersinia pestis Angola]
Length = 612
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +EN
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSEN- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|56416704|ref|YP_153778.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries]
gi|56387936|gb|AAV86523.1| RNA polymerase sigma factor [Anaplasma marginale str. St. Maries]
Length = 632
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 144/256 (56%), Gaps = 13/256 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 383 AKIQKHERTANKAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 439
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P +++ +I R ++L E+
Sbjct: 440 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINRTLRQMLHEI 494
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ + ++ E+ R+VMK K +SL S G F + I D V+ EN
Sbjct: 495 GREPTLEELSTRLGMNVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENA 554
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNISREMVRKHEV 498
A LR VL +L PKE ++R RFG+ GKG D TL E+ N++RE +R+ E
Sbjct: 555 AVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVTRERIRQIEA 613
Query: 499 KGLMKLKHPTRVDYLR 514
K L KL+HP+R LR
Sbjct: 614 KALRKLRHPSRARKLR 629
>gi|420239885|ref|ZP_14744161.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF080]
gi|398078194|gb|EJL69116.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF080]
Length = 689
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S A+ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 423 LATETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 479
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 480 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 534
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 535 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 594
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 595 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 649
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 650 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 687
>gi|148272828|ref|YP_001222389.1| RNA polymerase sigma factor [Clavibacter michiganensis subsp.
michiganensis NCPPB 382]
gi|147830758|emb|CAN01698.1| RNA polymerase principal sigma factor [Clavibacter michiganensis
subsp. michiganensis NCPPB 382]
Length = 492
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A++ L+ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + F+ S
Sbjct: 252 GQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFS 308
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 309 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 363
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 364 SRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQ 423
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ +LDSL +E+ VIR RFGL +TL +I ++RE +R+ E K + KL+HP+R
Sbjct: 424 LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSR 483
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 484 SQSLRDYL 491
>gi|365888347|ref|ZP_09427121.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. STM
3809]
gi|365335991|emb|CCD99652.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. STM
3809]
Length = 703
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E LA T + + +K + R A+ ++++ NL
Sbjct: 417 KNFVHYEKDRIKDLRQEVQS--LAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 474
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 475 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 531
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 532 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 586
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 587 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 640
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 641 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 700
Query: 517 M 517
+
Sbjct: 701 L 701
>gi|154245186|ref|YP_001416144.1| RNA polymerase sigma factor RpoD [Xanthobacter autotrophicus Py2]
gi|154159271|gb|ABS66487.1| RNA polymerase, sigma 70 subunit, RpoD [Xanthobacter autotrophicus
Py2]
Length = 666
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/279 (34%), Positives = 151/279 (54%), Gaps = 29/279 (10%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T + A+ +K +++ R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 400 LATETGLEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLD 456
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 457 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIE 511
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-- 423
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 512 TINKIVRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSH 571
Query: 424 --EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+FI N I +D N LR VL SL P+E V+R RFG+ D T
Sbjct: 572 LGDFIEDKNAILPIDAAIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHT 625
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 626 LEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 664
>gi|89100479|ref|ZP_01173341.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911]
gi|89084822|gb|EAR63961.1| RNA polymerase sigma factor [Bacillus sp. NRRL B-14911]
Length = 374
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 167/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V+L A +
Sbjct: 88 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAQE-EISL 126
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 127 AKRIEEGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 183
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 184 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 238
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++++P++ RE++K ++ +SL + G + + I D D
Sbjct: 239 EPTPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSEHAA 298
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 299 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 358
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 359 KLRHPSRSKRLKDFL 373
>gi|429334653|ref|ZP_19215307.1| RNA polymerase sigma factor RpoD [Pseudomonas putida CSV86]
gi|428760724|gb|EKX82984.1| RNA polymerase sigma factor RpoD [Pseudomonas putida CSV86]
Length = 616
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 168/311 (54%), Gaps = 28/311 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVGRA--- 274
TW L + + + +L D+ R + V+L T ++ A++K + +G A
Sbjct: 317 TWSGDLAKRSTKWAEALGRLDADIVRCQQKLVDLEAETGLTIAEIKDINRRMSIGEAKAR 376
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 377 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 433
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 434 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEELGE 488
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L
Sbjct: 489 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVESL 543
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 544 KEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 603
Query: 507 PTRVDYLRQHM 517
PTR ++LR +
Sbjct: 604 PTRSEHLRSFL 614
>gi|1938356|gb|AAC45155.1| RpoD [Xanthomonas campestris pv. campestris]
Length = 622
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/295 (31%), Positives = 163/295 (55%), Gaps = 30/295 (10%)
Query: 237 VKEQLQKDLGREPTDVELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLF 289
VK+Q+ + + +E+ +A ++ A++K + + G A A+ ++++ NLRLV+
Sbjct: 341 VKDQI---VSEQQGSIEMEKANYLTLAEIKDISRAMAYGEAKARKAKKEMVEANLRLVIS 397
Query: 290 VIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVS 349
+ KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 398 IAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 454
Query: 350 SFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKAS 408
+ T R+P +++ ++ R ++L + R PT EE+ + +++ ++ R+VMK +
Sbjct: 455 ARTIRIPV-----HMIETINKLNRISRQMLQQFGREPTPEELAKEMDMPEDKIRKVMKIA 509
Query: 409 KPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKES 462
K +S+ + G ++ + D +E+ N P L + DVL L P+E+
Sbjct: 510 KEPISMETPIGDDEDSHLG-----DFIEDTNVESPIDNTTNINLSETVRDVLAGLTPREA 564
Query: 463 LVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 565 KVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFL 619
>gi|147674012|ref|YP_001216017.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395]
gi|227116893|ref|YP_002818789.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395]
gi|146315895|gb|ABQ20434.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395]
gi|227012343|gb|ACP08553.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O395]
Length = 621
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 323 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISHRMSIGEAKAR 381
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 382 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 438
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 439 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 493
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 494 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 548
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 549 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 608
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 609 PSRSEVLRSFL 619
>gi|390435428|ref|ZP_10223966.1| RNA polymerase sigma factor RpoD [Pantoea agglomerans IG1]
Length = 613
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + ++Q D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETNETWFKAALAMNKPWSEKLLEVQDDVTRSLQKLAQVEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|121591668|ref|ZP_01678905.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80]
gi|121546475|gb|EAX56696.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 2740-80]
Length = 603
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 305 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 363
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 364 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 420
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 421 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 475
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 476 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 530
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 531 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 590
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 591 PSRSEVLRSFL 601
>gi|152976724|ref|YP_001376241.1| RNA polymerase sigma factor RpoD [Bacillus cytotoxicus NVH 391-98]
gi|152025476|gb|ABS23246.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus cytotoxicus
NVH 391-98]
Length = 373
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 103/320 (32%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIQLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPTPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>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 = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/321 (31%), Positives = 174/321 (54%), Gaps = 41/321 (12%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
+ D + +PP + K+ P+++++ K++GR D+ AE A
Sbjct: 88 TFDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEQEIALAE 129
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++++ E AR +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 RIEQGDE---EARKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 183
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 184 YRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 238
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E+ +
Sbjct: 239 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDSEAQS 293
Query: 443 PA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+
Sbjct: 294 PSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 353
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R L+ +
Sbjct: 354 EAKALRKLRHPSRSKRLKDFL 374
>gi|254480921|ref|ZP_05094167.1| Sigma-70, non-essential region family [marine gamma proteobacterium
HTCC2148]
gi|214038716|gb|EEB79377.1| Sigma-70, non-essential region family [marine gamma proteobacterium
HTCC2148]
Length = 605
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 86/253 (33%), Positives = 143/253 (56%), Gaps = 20/253 (7%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 364 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 420
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 421 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 475
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------ 444
+ +++ ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 476 GERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTISSPVDSATGQ 530
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 531 GLQEATKDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 590
Query: 505 KHPTRVDYLRQHM 517
+HPTR DYLR +
Sbjct: 591 RHPTRSDYLRSFL 603
>gi|365883901|ref|ZP_09423001.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS
375]
gi|365287588|emb|CCD95532.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS
375]
Length = 702
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E LA T + + +K + R A+ ++++ NL
Sbjct: 416 KNFVHYEKDRIKDLRQEVQS--LAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 473
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 474 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 530
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 531 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 585
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 586 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 639
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 640 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 699
Query: 517 M 517
+
Sbjct: 700 L 700
>gi|384215664|ref|YP_005606830.1| primary sigma factor [Bradyrhizobium japonicum USDA 6]
gi|354954563|dbj|BAL07242.1| primary sigma factor [Bradyrhizobium japonicum USDA 6]
Length = 719
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 159/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV +++ KDL E +LA T + + +K + R A+ ++++ NL
Sbjct: 433 KNFVHIEKDRIKDLRHEVH--QLAALTGLEIVEFRKIVHSVQKGEREARQAKKEMVEANL 490
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 491 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 547
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 548 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 602
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 603 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 656
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 657 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 716
Query: 517 M 517
+
Sbjct: 717 L 717
>gi|423076581|ref|ZP_17065289.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense DP7]
gi|361852386|gb|EHL04646.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense DP7]
Length = 392
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/278 (34%), Positives = 153/278 (55%), Gaps = 17/278 (6%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G +A+ +L + NLRLV+ + K+Y G
Sbjct: 128 KEIGRVPL------LTAEEEIELAKRMEQGDESAKRRLAEANLRLVVSIAKRYV---GRG 178
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P
Sbjct: 179 MLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRIP----- 233
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI ++IS ER RE+MK ++ +SL + G
Sbjct: 234 VHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERVREIMKIAQEPVSLETPIGE 293
Query: 421 TQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
++ + I D D LL+ L++VL++L P+E V+R RFGLD RTL
Sbjct: 294 EEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPREEKVLRLRFGLDDGRTRTL 353
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 354 EEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 391
>gi|254517369|ref|ZP_05129426.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3]
gi|219674207|gb|EED30576.1| RNA polymerase sigma factor RpoD [gamma proteobacterium NOR5-3]
Length = 607
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 90/279 (32%), Positives = 155/279 (55%), Gaps = 27/279 (9%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ AT ++ ++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 338 QIEAATGLTVTEIKEINRRMSMGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 394
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 395 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 449
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 450 ETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKVRKVLKIAKEPISMETPIGDDEDS 509
Query: 425 FINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+ D +E++ P L A DVL L +E+ V+R RFG+D D T
Sbjct: 510 HLG-----DFIEDQTINSPIDAATGQGLMEATKDVLAGLTAREAKVLRMRFGIDMNTDHT 564
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KL+HPTR DYLR +
Sbjct: 565 LEEVGKQFDVTRERIRQIEAKALRKLRHPTRSDYLRSFL 603
>gi|153828433|ref|ZP_01981100.1| RNA polymerase sigma factor RpoD, partial [Vibrio cholerae 623-39]
gi|148876142|gb|EDL74277.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 623-39]
Length = 572
Score = 143 bits (360), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 274 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 332
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 333 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 389
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 390 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAE 444
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 445 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 499
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 500 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 559
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 560 PSRSEVLRSFL 570
>gi|374604421|ref|ZP_09677383.1| RNA polymerase sigma factor [Paenibacillus dendritiformis C454]
gi|374390007|gb|EHQ61367.1| RNA polymerase sigma factor [Paenibacillus dendritiformis C454]
Length = 292
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 159/300 (53%), Gaps = 32/300 (10%)
Query: 225 FKLMQPMKVFVQVKEQLQKDLGREPT-----DVELAEATNMSAAQVKKCLEVGRAARNKL 279
KL P+++++ K++GR P ++ELA K+ ++ A+ +L
Sbjct: 17 IKLDDPVRMYL-------KEIGRVPLLSAEEEIELA----------KRVVQGDAEAKQRL 59
Query: 280 IKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIR 339
+ NLRLV+ + ++Y G DL Q G GL+ A+D+F+ + ++ STY +WIR
Sbjct: 60 AEANLRLVVSIARRYI---GRGMMLLDLIQEGNMGLMRAVDKFDYTKGYKFSTYATWWIR 116
Query: 340 HAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISP 398
AI RS+ + T RVP + T ++ R ELL EL R PT EEI + I+P
Sbjct: 117 QAITRSIADQARTIRVPVHMVETI-----NKLNRISKELLQELGREPTPEEIAVKMEITP 171
Query: 399 ERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSL 457
E+ RE+MK + +S+ + G + + I D + + + LL+L L+DVLD+L
Sbjct: 172 EKVREIMKIGQEPVSIETPVGDENDSSLGDFIEDQEALAPADAAAYELLKLQLEDVLDTL 231
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 232 TEREQNVLRLRFGLDDGRTRTLEEVGHEFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 291
>gi|359299231|ref|ZP_09185070.1| RNA polymerase sigma factor RpoD [Haemophilus [parainfluenzae] CCUG
13788]
gi|402304257|ref|ZP_10823328.1| RNA polymerase sigma factor RpoD [Haemophilus sputorum HK 2154]
gi|400378076|gb|EJP30939.1| RNA polymerase sigma factor RpoD [Haemophilus sputorum HK 2154]
Length = 623
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 90/282 (31%), Positives = 159/282 (56%), Gaps = 33/282 (11%)
Query: 253 ELAEATNMSAAQVKKCLEVG----------RAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
EL +++ ++ AQ++ E+G R A+ ++++ NLRLV+ + KKY G
Sbjct: 356 ELEQSSGLTIAQIR---EIGGRIANGELKARRAKKEMVEANLRLVISIAKKYTN---RGL 409
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P
Sbjct: 410 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----V 464
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+++ ++ R + L E+ R T EE+ + +N+ ++ R+V+K +K +S+ + G
Sbjct: 465 HMIETINKLNRISRQCLQEMGREATPEELAERMNMPEDKIRKVLKIAKEPISMETPIGDD 524
Query: 422 QEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKG 475
+ + D +++E+ P LR+A ++VL+ L P+E+ V+R RFG+D
Sbjct: 525 DDSHLG-----DFIQDESLELPLDSATAESLRIATNEVLEGLTPREAKVLRMRFGIDMNT 579
Query: 476 DRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 580 DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFL 621
>gi|418940775|ref|ZP_13494129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium sp.
PDO1-076]
gi|375052599|gb|EHS49012.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium sp.
PDO1-076]
Length = 686
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 159/310 (51%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + KD RE LA T +S + ++ + + R
Sbjct: 388 MKSIANLSARGWKDFAREENQTIRDIRGEIQNLATETGISVTEFRRIVHMVQKGEREARI 447
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 448 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 504
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ +I R ++L E+ R PT EE+ +
Sbjct: 505 TWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEK 559
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 560 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 614
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 615 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 674
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 675 SRSRKLRSFL 684
>gi|262167116|ref|ZP_06034830.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27]
gi|262024416|gb|EEY43103.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC27]
Length = 621
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 323 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 381
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 382 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 438
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 439 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 493
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 494 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 548
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 549 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 608
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 609 PSRSEVLRSFL 619
>gi|26987129|ref|NP_742554.1| RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440]
gi|148545673|ref|YP_001265775.1| RNA polymerase sigma factor RpoD [Pseudomonas putida F1]
gi|386010046|ref|YP_005928323.1| protein RpoD [Pseudomonas putida BIRD-1]
gi|397694925|ref|YP_006532806.1| RNA polymerase sigma factor rpoD [Pseudomonas putida DOT-T1E]
gi|421524961|ref|ZP_15971582.1| RNA polymerase sigma factor RpoD [Pseudomonas putida LS46]
gi|24981760|gb|AAN66018.1|AE016231_1 RNA polymerase sigma factor RpoD [Pseudomonas putida KT2440]
gi|2654492|gb|AAB87749.1| DNA-directed RNA polymerase sigma subunit [Pseudomonas putida]
gi|2731762|gb|AAC38073.1| sigma-70 [Pseudomonas putida]
gi|148509731|gb|ABQ76591.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida F1]
gi|313496752|gb|ADR58118.1| RpoD [Pseudomonas putida BIRD-1]
gi|397331655|gb|AFO48014.1| RNA polymerase sigma factor rpoD [Pseudomonas putida DOT-T1E]
gi|402751424|gb|EJX11937.1| RNA polymerase sigma factor RpoD [Pseudomonas putida LS46]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|269960187|ref|ZP_06174562.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3]
gi|269834994|gb|EEZ89078.1| RNA polymerase sigma factor [Vibrio harveyi 1DA3]
Length = 639
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/316 (29%), Positives = 173/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ ++++ R T +++ E T+++ +K + +G
Sbjct: 335 NESSEAWLDEILSSDKPYAEKIKRSEEEIRRSITKLKMIEEETSLNVQNIKDISRRMSIG 394
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 395 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 451
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 452 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 506
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 507 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 561
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 562 TATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 621
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 622 RKLRHPSRSETLRSFL 637
>gi|146276891|ref|YP_001167050.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC
17025]
gi|145555132|gb|ABP69745.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodobacter sphaeroides
ATCC 17025]
Length = 667
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 418 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 474
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 475 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 529
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 530 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 589
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 590 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 643
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 644 IEAKALRKLKHPSRSRKLRSFL 665
>gi|397677341|ref|YP_006518879.1| RNA polymerase sigma-70 subunit RpoD [Zymomonas mobilis subsp.
mobilis ATCC 29191]
gi|395398030|gb|AFN57357.1| RNA polymerase, sigma 70 subunit, RpoD [Zymomonas mobilis subsp.
mobilis ATCC 29191]
Length = 671
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 106/360 (29%), Positives = 190/360 (52%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
+IE LV + Y+Y++ L +L+ + +++ + + E W+ ++ + K
Sbjct: 324 RIEFLVEQLYNYNSRLRTLNGQMLRLAERYKVPRDSFLNAYLGNEMEEGWVERVSKIDKK 383
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ + + R ++V E+A+ T M+ ++++ + + R A+ ++++ NLR
Sbjct: 384 WANFTTSEAEGIERIRSEVAEIAQVTGMTLKELRRIVTMVQKGEREARIAKTEMVEANLR 443
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 444 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 500
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R ++L E+ R PT EE+ + +++ E+ R+V
Sbjct: 501 IADQARTIRIP-----VHMIETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKV 555
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N I VD N L+ + VL SL
Sbjct: 556 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASL 609
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 610 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 669
>gi|297626466|ref|YP_003688229.1| RNA polymerase principal sigma factor HrdB [Propionibacterium
freudenreichii subsp. shermanii CIRM-BIA1]
gi|296922231|emb|CBL56801.1| RNA polymerase principal sigma factor HrdB [Propionibacterium
freudenreichii subsp. shermanii CIRM-BIA1]
Length = 509
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E G A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 267 EDGHRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 323
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WI+ AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 324 FSTYATWWIKQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 378
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 379 ELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVNFTLLQ 438
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L DVLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 439 EQLHDVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 498
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 499 SRSQVLRDYL 508
>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 = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 98/297 (32%), Positives = 163/297 (54%), Gaps = 17/297 (5%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ + K +Q + + + +L K LG EPT+ + AE N+S AQ++ L G+
Sbjct: 35 PLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVNLSVAQLQHILHQGQ 94
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 95 LAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 151
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ T R+P I + +I++A+ +L +L R T E+
Sbjct: 152 AYWWIRQAITRAIAEKGRTIRLPI-----HITEKLNKIKKAQRQLAQQLGRAATMNELAA 206
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPAL---LRL 448
++++P++ RE ++ S+ LSL R G Q+ E ++ + D + + Q AL LR
Sbjct: 207 ELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDT----SNSPEQFALNSSLRS 262
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L+ ++ L ++ V+ RFGLD TL +I LNISRE VR+ E + L KL+
Sbjct: 263 DLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
>gi|440737977|ref|ZP_20917527.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens
BRIP34879]
gi|447918659|ref|YP_007399227.1| RNA polymerase sigma factor RpoD [Pseudomonas poae RE*1-1-14]
gi|440381552|gb|ELQ18079.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens
BRIP34879]
gi|445202522|gb|AGE27731.1| RNA polymerase sigma factor RpoD [Pseudomonas poae RE*1-1-14]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|410643649|ref|ZP_11354142.1| RNA polymerase primary sigma factor [Glaciecola chathamensis S18K6]
gi|410646950|ref|ZP_11357391.1| RNA polymerase primary sigma factor [Glaciecola agarilytica NO2]
gi|410133451|dbj|GAC05790.1| RNA polymerase primary sigma factor [Glaciecola agarilytica NO2]
gi|410136729|dbj|GAC12329.1| RNA polymerase primary sigma factor [Glaciecola chathamensis S18K6]
Length = 612
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/319 (30%), Positives = 172/319 (53%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T WL+++M +V+ +E+L++ +G+ + E T + A +K +
Sbjct: 308 NETSTDWLYEIMASDAPYVEELKVHQEELERSIGKMNA---VEEETGLIIADIKDINRRM 364
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 365 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 421
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 422 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 476
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 477 PTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTIVQPL 531
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 532 DSATGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 591
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 592 KALRKLRHPSRSEQLRSFL 610
>gi|308177806|ref|YP_003917212.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117]
gi|307745269|emb|CBT76241.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117]
Length = 403
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 88/254 (34%), Positives = 146/254 (57%), Gaps = 10/254 (3%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
++ + G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 157 EQIIHDGKIAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYT 213
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R
Sbjct: 214 KGFKFSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGRE 268
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQP 443
PT EE+ + ++++PE+ EV K + +SLH+ G + EF + I D + V +
Sbjct: 269 PTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 328
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LL+ L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + K
Sbjct: 329 TLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 388
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R LR ++
Sbjct: 389 LRHPSRSQVLRDYL 402
>gi|229592968|ref|YP_002875087.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens SBW25]
gi|229364834|emb|CAY52873.1| RNA polymerase sigma factor (sigma-70) [Pseudomonas fluorescens
SBW25]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|114764808|ref|ZP_01443990.1| RNA polymerase sigma factor [Pelagibaca bermudensis HTCC2601]
gi|114542694|gb|EAU45717.1| RNA polymerase sigma factor [Roseovarius sp. HTCC2601]
Length = 661
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/263 (35%), Positives = 146/263 (55%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 411 GQVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 467
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 468 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEI 522
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 523 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDS 582
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 583 AIQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 636
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 637 QIEAKALRKLKHPSRSRKLRSFL 659
>gi|398844525|ref|ZP_10601587.1| RNA polymerase sigma factor, sigma-70 family [Pseudomonas sp. GM84]
gi|398254462|gb|EJN39557.1| RNA polymerase sigma factor, sigma-70 family [Pseudomonas sp. GM84]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|219670224|ref|YP_002460659.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense
DCB-2]
gi|219540484|gb|ACL22223.1| RNA polymerase, sigma 70 subunit, RpoD subfamily
[Desulfitobacterium hafniense DCB-2]
Length = 372
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/278 (34%), Positives = 153/278 (55%), Gaps = 17/278 (6%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G +A+ +L + NLRLV+ + K+Y G
Sbjct: 108 KEIGRVPL------LTAEEEIELAKRMEQGDESAKRRLAEANLRLVVSIAKRYV---GRG 158
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P
Sbjct: 159 MLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRIP----- 213
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI ++IS ER RE+MK ++ +SL + G
Sbjct: 214 VHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERVREIMKIAQEPVSLETPIGE 273
Query: 421 TQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
++ + I D D LL+ L++VL++L P+E V+R RFGLD RTL
Sbjct: 274 EEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPREEKVLRLRFGLDDGRTRTL 333
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 334 EEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 371
>gi|159044804|ref|YP_001533598.1| RNA polymerase sigma factor RpoD [Dinoroseobacter shibae DFL 12]
gi|157912564|gb|ABV93997.1| RNA polymerase sigma factor [Dinoroseobacter shibae DFL 12]
Length = 664
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 415 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 471
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 472 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 526
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 527 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 586
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 587 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 640
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 641 IEAKALRKLKHPSRSRKLRSFL 662
>gi|372275337|ref|ZP_09511373.1| RNA polymerase sigma factor RpoD [Pantoea sp. SL1_M5]
Length = 613
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 99/317 (31%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + ++Q D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETNETWFKAALAMNKPWSEKLLEVQDDVTRSLQKLAQVEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|296133798|ref|YP_003641045.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermincola potens
JR]
gi|296032376|gb|ADG83144.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermincola
potens JR]
Length = 366
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/283 (33%), Positives = 156/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 102 KEIGRVPL------LTAEEEVELAKRMETGDEEAKRRLAEANLRLVVSIAKRYV---GRG 152
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 153 LLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP----- 207
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI ++I +R RE+MK ++ +SL + G
Sbjct: 208 VHMVETINKLIRVSRQLLQELGREPTPEEIAAEMDIPVDRVREIMKIAQEPVSLETPIGE 267
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+++ PA LLR L++VL++L P+E V+R RFGLD
Sbjct: 268 EEDSHLG-----DFIEDQDAPAPAEAASFILLREQLEEVLETLTPREEKVLRLRFGLDDG 322
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 323 RSRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 365
>gi|336125140|ref|YP_004567188.1| RpoD [Vibrio anguillarum 775]
gi|335342863|gb|AEH34146.1| RpoD [Vibrio anguillarum 775]
Length = 618
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/311 (30%), Positives = 168/311 (54%), Gaps = 28/311 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA--- 274
WL +++ K + + Q ++D+ R +++ E T+++ +K + +G A
Sbjct: 319 AWLDEVLASEKPYAEKIRQQEEDIRRSIHKLKMIEEETSLNVQNIKDISRRMSIGEAKAR 378
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 379 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 435
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 436 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAE 490
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 491 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 545
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
R A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 546 RAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 605
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 606 PSRSETLRSFL 616
>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 = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q + ++KE L+ LG +P+D + +EA +S Q+++ L G
Sbjct: 22 PLLTHEEEILYAKQVQRLIFLEKIKESLKVKLGSDPSDRQWSEAAEISEEQLRRELGAGD 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 FAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ +L + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLAQDKGRAATIAELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ R+ ++ S+ LSL + G Q+ + + + G+ E+ + L++ L+
Sbjct: 194 ELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSLQVDLEK 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ VI RFGLD TL +I LNISRE VR+ E + + KL+
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
>gi|103486468|ref|YP_616029.1| RNA polymerase sigma factor RpoD [Sphingopyxis alaskensis RB2256]
gi|98976545|gb|ABF52696.1| RNA polymerase, sigma 70 subunit, RpoD [Sphingopyxis alaskensis
RB2256]
Length = 669
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 110/360 (30%), Positives = 182/360 (50%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
KIE LV + YSY+ L +L + +++ V E WL ++ K
Sbjct: 322 KIEYLVDQLYSYNRRLTALGGQMLRLAERHKVPRKSFLDHYVGRELEENWLEEVAGIDKK 381
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ E + R ++ E+A+A MS + ++ + + R A+ ++++ NLR
Sbjct: 382 WAAFAENEAAAVDRIRVEISEIAQAAGMSLTEFRRVVNMVQKGEREARIAKKEMVEANLR 441
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 442 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 498
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P +++ ++ R + L E R PT EE+ + +++ E+ R+V
Sbjct: 499 IADQARTIRIP-----VHMIETINKLVRCSRQFLHESGREPTPEEMAERLSMPLEKVRKV 553
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N + VD N L+ + VL SL
Sbjct: 554 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAVIPVDAAVQSN------LKETVTRVLASL 607
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 608 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 667
>gi|52425815|ref|YP_088952.1| RNA polymerase sigma factor RpoD [Mannheimia succiniciproducens
MBEL55E]
gi|52307867|gb|AAU38367.1| RpoD protein [Mannheimia succiniciproducens MBEL55E]
Length = 628
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 168/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKCLE----- 270
+ T WL L+Q K +V+ +Q ++ + ++ E T ++ Q++ E
Sbjct: 324 NETSEQWLESLLQSKKTYVEKLQQRAPEISKSIVRLQQVETDTKLTVQQIRDIGERIAQG 383
Query: 271 --VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 384 ELKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 440
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R +
Sbjct: 441 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASP 495
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 496 EELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSA 550
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 551 TAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 610
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 611 RKLRHPSRSETLRSFL 626
>gi|146338438|ref|YP_001203486.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. ORS 278]
gi|146191244|emb|CAL75249.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS
278]
Length = 703
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E LA T + + +K + R A+ ++++ NL
Sbjct: 417 KNFVHYEKDRIKDLRQEVQS--LAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 474
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 475 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 531
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 532 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 586
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 587 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 640
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 641 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 700
Query: 517 M 517
+
Sbjct: 701 L 701
>gi|104779687|ref|YP_606185.1| RNA polymerase sigma factor RpoD [Pseudomonas entomophila L48]
gi|95108674|emb|CAK13368.1| sigma D (sigma 70) factor of RNA polymerase [Pseudomonas
entomophila L48]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|440286101|ref|YP_007338866.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacteriaceae
bacterium strain FGI 57]
gi|440045623|gb|AGB76681.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacteriaceae
bacterium strain FGI 57]
Length = 613
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 172/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + + +KE +Q+ L + ++ E T ++ QVK +
Sbjct: 309 NETSETWFNAAVAMNKPWSEKLLDIKEDVQRSLMKLQ---QIEEETGLTIEQVKDINRRM 365
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 366 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 477
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 478 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 537
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 538 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 591
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 592 AKALRKLRHPSRSEVLRSFL 611
>gi|89895793|ref|YP_519280.1| RNA polymerase sigma factor RpoD [Desulfitobacterium hafniense Y51]
gi|89335241|dbj|BAE84836.1| hypothetical protein [Desulfitobacterium hafniense Y51]
Length = 367
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/278 (34%), Positives = 153/278 (55%), Gaps = 17/278 (6%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G +A+ +L + NLRLV+ + K+Y G
Sbjct: 103 KEIGRVPL------LTAEEEIELAKRMEQGDESAKRRLAEANLRLVVSIAKRYV---GRG 153
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P
Sbjct: 154 MLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRIP----- 208
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI ++IS ER RE+MK ++ +SL + G
Sbjct: 209 VHMVETINKLIRVSRQLLQELGREPTPEEIAVQMDISVERVREIMKIAQEPVSLETPIGE 268
Query: 421 TQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
++ + I D D LL+ L++VL++L P+E V+R RFGLD RTL
Sbjct: 269 EEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPREEKVLRLRFGLDDGRTRTL 328
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 329 EEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 366
>gi|302522320|ref|ZP_07274662.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78]
gi|302431215|gb|EFL03031.1| RNA polymerase sigma factor RpoS [Streptomyces sp. SPB78]
Length = 514
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 272 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 328
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 329 FSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 383
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 384 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 443
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 444 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 503
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 504 SRSQVLRDYL 513
>gi|318059566|ref|ZP_07978289.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actG]
gi|318075441|ref|ZP_07982773.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF]
Length = 446
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 204 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 260
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 261 FSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 315
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 316 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 375
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 376 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 435
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 436 SRSQVLRDYL 445
>gi|424047983|ref|ZP_17785539.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HENC-03]
gi|408883293|gb|EKM22080.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HENC-03]
Length = 620
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 92/316 (29%), Positives = 173/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ ++++ R T +++ E T+++ +K + +G
Sbjct: 316 NESSEAWLDEILSSDKPYAEKIKRSEEEIRRSITKLKMIEEETSLNVQNIKDISRRMSIG 375
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 376 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 432
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 433 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 487
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 488 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 542
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 543 TATSLKMATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 602
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 603 RKLRHPSRSETLRSFL 618
>gi|421350352|ref|ZP_15800718.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-25]
gi|395954474|gb|EJH65084.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-25]
Length = 627
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 329 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 387
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 388 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 444
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 445 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 499
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 500 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 554
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 555 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 614
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 615 PSRSEVLRSFL 625
>gi|417823644|ref|ZP_12470236.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE48]
gi|340048273|gb|EGR09195.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE48]
Length = 625
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 385
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 442
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 443 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 497
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 498 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 552
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 612
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 613 PSRSEVLRSFL 623
>gi|119492598|ref|ZP_01623816.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106]
gi|119453067|gb|EAW34237.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106]
Length = 333
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 91/293 (31%), Positives = 158/293 (53%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++ K++L K L EP+ E A ++ ++ + L+ GR
Sbjct: 37 PLLTQEEEIHYGKQVQQMMKQLEEKDKLTKKLEHEPSKTEWANEVELTEDELDRILDCGR 96
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 97 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 153
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+W+R AI R++ + T R+P I + +I+R + +L+ + R PT EI +
Sbjct: 154 AYWWVRQAITRAIAQNGRTIRLPI-----HITEKLNKIKRVQRDLVQKYGRNPTPTEIAE 208
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+ + P + RE + AS+ +SL R G Q+ + + + + +N LLR L
Sbjct: 209 ALELEPSQIREYLLASRHPISLDLRVGDNQDTELQELLEDETASADNYVTHELLRQDLKS 268
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++D L P++ VI R+GL+ + +L ++ ++ISRE VR+ E + L L+
Sbjct: 269 LIDELTPQQREVILLRYGLEDGKELSLSKVGARMSISRERVRQLENQALNHLR 321
>gi|163841160|ref|YP_001625565.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum
ATCC 33209]
gi|1808669|emb|CAA71796.1| RNA polymerase [Renibacterium salmoninarum]
gi|162954636|gb|ABY24151.1| RNA polymerase principal sigma factor [Renibacterium salmoninarum
ATCC 33209]
Length = 462
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 142/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 222 GKRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNMGLIRAVEKFDYTKGFKFS 278
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 279 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 333
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 334 ALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 393
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 394 LHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 453
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 454 SQVLRDYL 461
>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 = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 160/309 (51%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REP E A+
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLIDAKEVLAKKLHREPDMSEWADV 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
S +V++ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VQQSETEVQQTVAQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R PT EI + + + P + RE + ++ +SL + G Q+ + + + G
Sbjct: 187 LAQTLGRSPTPAEIAKELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDSGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTNQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|15640541|ref|NP_230168.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor
str. N16961]
gi|121728933|ref|ZP_01681939.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52]
gi|153819447|ref|ZP_01972114.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457]
gi|153822185|ref|ZP_01974852.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33]
gi|227080700|ref|YP_002809251.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2]
gi|254291201|ref|ZP_04961997.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226]
gi|254850756|ref|ZP_05240106.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10]
gi|255744255|ref|ZP_05418208.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101]
gi|360037141|ref|YP_004938904.1| RNA polymerase primary sigma factor [Vibrio cholerae O1 str.
2010EL-1786]
gi|379740389|ref|YP_005332358.1| RNA polymerase sigma factor RpoD [Vibrio cholerae IEC224]
gi|417812487|ref|ZP_12459147.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-49A2]
gi|417815349|ref|ZP_12461983.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HCUF01]
gi|417819377|ref|ZP_12465994.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE39]
gi|418331492|ref|ZP_12942434.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-06A1]
gi|418336367|ref|ZP_12945266.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-23A1]
gi|418342748|ref|ZP_12949546.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-28A1]
gi|418347911|ref|ZP_12952647.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-43A1]
gi|418354374|ref|ZP_12957098.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-61A1]
gi|419824993|ref|ZP_14348499.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CP1033(6)]
gi|419829066|ref|ZP_14352555.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-1A2]
gi|419831846|ref|ZP_14355313.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-61A2]
gi|419835443|ref|ZP_14358888.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-46B1]
gi|421315959|ref|ZP_15766531.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1032(5)]
gi|421319290|ref|ZP_15769849.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1038(11)]
gi|421323338|ref|ZP_15773867.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1041(14)]
gi|421327743|ref|ZP_15778259.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1042(15)]
gi|421330750|ref|ZP_15781232.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1046(19)]
gi|421334332|ref|ZP_15784801.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1048(21)]
gi|421342237|ref|ZP_15792644.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-43B1]
gi|421346540|ref|ZP_15796923.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-46A1]
gi|421353331|ref|ZP_15803664.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-45]
gi|422305926|ref|ZP_16393113.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CP1035(8)]
gi|422890562|ref|ZP_16932978.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-40A1]
gi|422901429|ref|ZP_16936797.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-48A1]
gi|422905645|ref|ZP_16940496.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-70A1]
gi|422912249|ref|ZP_16946776.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HFU-02]
gi|422916232|ref|ZP_16950573.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-02A1]
gi|422921747|ref|ZP_16954954.1| RNA polymerase sigma factor rpoD [Vibrio cholerae BJG-01]
gi|422924728|ref|ZP_16957762.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-38A1]
gi|423144052|ref|ZP_17131667.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-19A1]
gi|423148756|ref|ZP_17136116.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-21A1]
gi|423152547|ref|ZP_17139746.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-22A1]
gi|423155329|ref|ZP_17142466.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-32A1]
gi|423159189|ref|ZP_17146162.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-33A2]
gi|423163875|ref|ZP_17150664.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-48B2]
gi|423730002|ref|ZP_17703321.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-17A1]
gi|423733806|ref|ZP_17707022.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-41B1]
gi|423747370|ref|ZP_17711397.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-50A2]
gi|423816190|ref|ZP_17715176.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-55C2]
gi|423848253|ref|ZP_17718962.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-59A1]
gi|423878832|ref|ZP_17722570.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-60A1]
gi|423891721|ref|ZP_17725412.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-62A1]
gi|423926498|ref|ZP_17730027.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-77A1]
gi|423946534|ref|ZP_17733442.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HE-40]
gi|423975972|ref|ZP_17736989.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HE-46]
gi|423996652|ref|ZP_17739918.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-02C1]
gi|424001053|ref|ZP_17744143.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-17A2]
gi|424005213|ref|ZP_17748198.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-37A1]
gi|424008090|ref|ZP_17751040.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-44C1]
gi|424015353|ref|ZP_17755203.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-55B2]
gi|424018464|ref|ZP_17758266.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-59B1]
gi|424023222|ref|ZP_17762887.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-62B1]
gi|424026024|ref|ZP_17765641.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-69A1]
gi|424585428|ref|ZP_18025022.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1030(3)]
gi|424589767|ref|ZP_18029214.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1037(10)]
gi|424594047|ref|ZP_18033386.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1040(13)]
gi|424597984|ref|ZP_18037184.1| RNA polymerase sigma factor rpoD [Vibrio Cholerae CP1044(17)]
gi|424600745|ref|ZP_18039902.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1047(20)]
gi|424605639|ref|ZP_18044605.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1050(23)]
gi|424609477|ref|ZP_18048336.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-39A1]
gi|424612278|ref|ZP_18051086.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-41A1]
gi|424616154|ref|ZP_18054846.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-42A1]
gi|424620914|ref|ZP_18059444.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-47A1]
gi|424623834|ref|ZP_18062314.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-50A1]
gi|424628410|ref|ZP_18066719.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-51A1]
gi|424632369|ref|ZP_18070488.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-52A1]
gi|424635454|ref|ZP_18073478.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-55A1]
gi|424639368|ref|ZP_18077267.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-56A1]
gi|424644012|ref|ZP_18081767.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-56A2]
gi|424647528|ref|ZP_18085208.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-57A1]
gi|424651657|ref|ZP_18089182.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-57A2]
gi|424655604|ref|ZP_18092907.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-81A2]
gi|429887706|ref|ZP_19369216.1| RNA polymerase sigma factor RpoD [Vibrio cholerae PS15]
gi|440708727|ref|ZP_20889388.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 4260B]
gi|443502553|ref|ZP_21069543.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-64A1]
gi|443506463|ref|ZP_21073256.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-65A1]
gi|443510572|ref|ZP_21077238.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-67A1]
gi|443514131|ref|ZP_21080673.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-68A1]
gi|443517945|ref|ZP_21084364.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-71A1]
gi|443522813|ref|ZP_21089055.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-72A2]
gi|443526387|ref|ZP_21092470.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-78A1]
gi|443530430|ref|ZP_21096446.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-7A1]
gi|443534206|ref|ZP_21100120.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-80A1]
gi|443537784|ref|ZP_21103641.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-81A1]
gi|449054253|ref|ZP_21732921.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 str. Inaba
G4222]
gi|9654945|gb|AAF93687.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 biovar El Tor
str. N16961]
gi|121628781|gb|EAX61245.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V52]
gi|126510018|gb|EAZ72612.1| RNA polymerase sigma factor RpoD [Vibrio cholerae NCTC 8457]
gi|126520320|gb|EAZ77543.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33]
gi|150422895|gb|EDN14846.1| RNA polymerase sigma factor RpoD [Vibrio cholerae AM-19226]
gi|220897845|dbj|BAH11107.1| RNA polymerase sigma factor [Vibrio cholerae O1 biovar El tor]
gi|227008588|gb|ACP04800.1| RNA polymerase sigma factor RpoD [Vibrio cholerae M66-2]
gi|254846461|gb|EET24875.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MO10]
gi|255738195|gb|EET93587.1| RNA polymerase sigma factor RpoD [Vibrio cholera CIRS 101]
gi|340041233|gb|EGR02200.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE39]
gi|340043335|gb|EGR04294.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HCUF01]
gi|340043867|gb|EGR04824.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-49A2]
gi|341625431|gb|EGS50884.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-70A1]
gi|341626574|gb|EGS51945.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-48A1]
gi|341627082|gb|EGS52410.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-40A1]
gi|341640752|gb|EGS65331.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-02A1]
gi|341641029|gb|EGS65601.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HFU-02]
gi|341647962|gb|EGS72030.1| RNA polymerase sigma factor rpoD [Vibrio cholerae BJG-01]
gi|341648556|gb|EGS72608.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-38A1]
gi|356420519|gb|EHH74038.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-06A1]
gi|356421694|gb|EHH75186.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-21A1]
gi|356426185|gb|EHH79509.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-19A1]
gi|356433148|gb|EHH86341.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-23A1]
gi|356434713|gb|EHH87887.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-22A1]
gi|356437966|gb|EHH91031.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-28A1]
gi|356443147|gb|EHH95976.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-32A1]
gi|356448022|gb|EHI00807.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-43A1]
gi|356450316|gb|EHI03045.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-33A2]
gi|356454150|gb|EHI06805.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-61A1]
gi|356456394|gb|EHI09000.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-48B2]
gi|356648295|gb|AET28350.1| RNA polymerase primary sigma factor [Vibrio cholerae O1 str.
2010EL-1786]
gi|378793899|gb|AFC57370.1| RNA polymerase sigma factor RpoD [Vibrio cholerae IEC224]
gi|395922700|gb|EJH33516.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1032(5)]
gi|395923183|gb|EJH33995.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1041(14)]
gi|395925615|gb|EJH36412.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1038(11)]
gi|395931477|gb|EJH42222.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1042(15)]
gi|395934603|gb|EJH45341.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1046(19)]
gi|395937441|gb|EJH48155.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1048(21)]
gi|395945740|gb|EJH56405.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-43B1]
gi|395946688|gb|EJH57348.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-46A1]
gi|395954678|gb|EJH65287.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-45]
gi|395962928|gb|EJH73216.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-56A2]
gi|395963816|gb|EJH74068.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-57A2]
gi|395966645|gb|EJH76760.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-42A1]
gi|395975537|gb|EJH85026.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-47A1]
gi|395977571|gb|EJH86976.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1030(3)]
gi|395978965|gb|EJH88329.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1047(20)]
gi|408009739|gb|EKG47634.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-39A1]
gi|408016119|gb|EKG53675.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-50A1]
gi|408016619|gb|EKG54153.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-41A1]
gi|408021207|gb|EKG58472.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-52A1]
gi|408027075|gb|EKG64058.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-56A1]
gi|408027624|gb|EKG64586.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-55A1]
gi|408036456|gb|EKG72886.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1037(10)]
gi|408037003|gb|EKG73411.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-57A1]
gi|408037185|gb|EKG73585.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1040(13)]
gi|408044857|gb|EKG80743.1| RNA polymerase sigma factor rpoD [Vibrio Cholerae CP1044(17)]
gi|408046752|gb|EKG82421.1| RNA polymerase sigma factor rpoD [Vibrio cholerae CP1050(23)]
gi|408057380|gb|EKG92231.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-81A2]
gi|408058911|gb|EKG93687.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-51A1]
gi|408611264|gb|EKK84625.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CP1033(6)]
gi|408622255|gb|EKK95243.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-1A2]
gi|408627378|gb|EKL00190.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-17A1]
gi|408627827|gb|EKL00620.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CP1035(8)]
gi|408631809|gb|EKL04332.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-41B1]
gi|408636861|gb|EKL08983.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-55C2]
gi|408641963|gb|EKL13726.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-50A2]
gi|408644126|gb|EKL15832.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-60A1]
gi|408645238|gb|EKL16899.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-59A1]
gi|408652253|gb|EKL23478.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-61A2]
gi|408658567|gb|EKL29633.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-77A1]
gi|408659574|gb|EKL30613.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HC-62A1]
gi|408661979|gb|EKL32956.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HE-40]
gi|408666146|gb|EKL36945.1| RNA polymerase sigma factor RpoD [Vibrio cholerae HE-46]
gi|408848808|gb|EKL88845.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-37A1]
gi|408849369|gb|EKL89390.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-17A2]
gi|408854557|gb|EKL94310.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-02C1]
gi|408858856|gb|EKL98526.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-46B1]
gi|408862031|gb|EKM01583.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-55B2]
gi|408866377|gb|EKM05760.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-44C1]
gi|408870010|gb|EKM09292.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-59B1]
gi|408873452|gb|EKM12649.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-62B1]
gi|408881345|gb|EKM20241.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-69A1]
gi|429225275|gb|EKY31542.1| RNA polymerase sigma factor RpoD [Vibrio cholerae PS15]
gi|439975823|gb|ELP51930.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 4260B]
gi|443432944|gb|ELS75464.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-64A1]
gi|443436879|gb|ELS82993.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-65A1]
gi|443440443|gb|ELS90130.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-67A1]
gi|443444540|gb|ELS97811.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-68A1]
gi|443448375|gb|ELT05008.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-71A1]
gi|443451149|gb|ELT11411.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-72A2]
gi|443455236|gb|ELT19020.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-78A1]
gi|443458631|gb|ELT26026.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-7A1]
gi|443462513|gb|ELT33550.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-80A1]
gi|443466609|gb|ELT41266.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HC-81A1]
gi|448266250|gb|EMB03479.1| RNA polymerase sigma factor RpoD [Vibrio cholerae O1 str. Inaba
G4222]
Length = 625
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 385
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 442
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 443 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 497
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 498 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 552
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 612
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 613 PSRSEVLRSFL 623
>gi|33340521|gb|AAQ14856.1| RpoD [Pseudomonas fluorescens]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|365538639|ref|ZP_09363814.1| RNA polymerase sigma factor RpoD [Vibrio ordalii ATCC 33509]
Length = 618
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + + Q ++D+ R +++ E T+++ +K + +G A
Sbjct: 320 WLDEVIASEKPYAEKIRQQEEDIRRSIHKLKMIEEETSLNVQNIKDISRRMSIGEAKARR 379
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 380 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 436
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 437 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 491
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P LR
Sbjct: 492 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLR 546
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 547 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 606
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 607 SRSETLRSFL 616
>gi|384917491|ref|ZP_10017614.1| RNA polymerase sigma factor RpoD [Citreicella sp. 357]
gi|384468676|gb|EIE53098.1| RNA polymerase sigma factor RpoD [Citreicella sp. 357]
Length = 665
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 416 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 472
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 473 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 527
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 528 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 587
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 588 IQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 641
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 642 IEAKALRKLKHPSRSRKLRSFL 663
>gi|422909039|ref|ZP_16943691.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-09]
gi|424658392|ref|ZP_18095649.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-16]
gi|341636121|gb|EGS60824.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-09]
gi|408055114|gb|EKG90057.1| RNA polymerase sigma factor rpoD [Vibrio cholerae HE-16]
Length = 625
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 385
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 442
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 443 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAE 497
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 498 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 552
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 612
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 613 PSRSEVLRSFL 623
>gi|312963434|ref|ZP_07777916.1| sigma-70 [Pseudomonas fluorescens WH6]
gi|311282240|gb|EFQ60839.1| sigma-70 [Pseudomonas fluorescens WH6]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L T ++ A++K + +G
Sbjct: 312 NEVDESWSDALAKGKSKYAEAIGRLQPDIIRCQQKLTALENETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|433462816|ref|ZP_20420387.1| RNA polymerase sigma factor RpoD [Halobacillus sp. BAB-2008]
gi|432188272|gb|ELK45476.1| RNA polymerase sigma factor RpoD [Halobacillus sp. BAB-2008]
Length = 377
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 104/317 (32%), Positives = 170/317 (53%), Gaps = 35/317 (11%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATN-MSAA 263
D + +PP + K+ P+++++ K++GR V L A + +S A
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VNLLSAKDEISLA 130
Query: 264 QVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
Q +E G A+ L + NLRLV+ + K+Y G F DL Q G GLI A+++F
Sbjct: 131 Q---RIESGDEEAKRDLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKF 184
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 185 DYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDL 239
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQ 440
R PT EEI Q ++++P++ RE++K ++ +SL + G + + I D + +
Sbjct: 240 GREPTPEEIAQDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDH 299
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K
Sbjct: 300 AAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKA 359
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ M
Sbjct: 360 LRKLRHPSRSKRLKDFM 376
>gi|403738082|ref|ZP_10950810.1| putative RNA polymerase sigma factor [Austwickia chelonae NBRC
105200]
gi|403192194|dbj|GAB77580.1| putative RNA polymerase sigma factor [Austwickia chelonae NBRC
105200]
Length = 505
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 89/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 265 GRNAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 321
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 322 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 376
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 377 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 436
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 437 LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 496
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 497 SQVLRDYL 504
>gi|310816221|ref|YP_003964185.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25]
gi|385233725|ref|YP_005795067.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare WSH-001]
gi|308754956|gb|ADO42885.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare Y25]
gi|343462636|gb|AEM41071.1| RNA polymerase sigma factor [Ketogulonicigenium vulgare WSH-001]
Length = 658
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 409 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 465
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 466 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQMLHEIG 520
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 521 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 580
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 581 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 634
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 635 IEAKALRKLKHPSRSRKLRSFL 656
>gi|428280009|ref|YP_005561744.1| RNA polymerase sigma factor [Bacillus subtilis subsp. natto
BEST195]
gi|291484966|dbj|BAI86041.1| RNA polymerase sigma factor [Bacillus subtilis subsp. natto
BEST195]
Length = 371
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 167/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V L A A
Sbjct: 85 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VNLLSAKE-EIAY 123
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
KK E ++ +L + NLRLV+ + K+Y G F DL Q G GL+ A+++F+
Sbjct: 124 AKKIEEGDEESKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLMKAVEKFDY 180
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 181 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 235
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++++PE+ RE++K ++ +SL + G + + I D + +
Sbjct: 236 EPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAA 295
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 296 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 355
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 356 KLRHPSRSKRLKDFL 370
>gi|269958878|ref|YP_003328667.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel]
gi|269848709|gb|ACZ49353.1| RNA polymerase sigma factor [Anaplasma centrale str. Israel]
Length = 649
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 144/256 (56%), Gaps = 13/256 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 400 AKIQKHERTANKAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 456
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P +++ +I R ++L E+
Sbjct: 457 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINRTLRQMLHEI 511
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ + ++ E+ R+VMK K +SL S G F + I D V+ EN
Sbjct: 512 GREPTLEELSARLGMNVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENA 571
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNISREMVRKHEV 498
A LR VL +L PKE ++R RFG+ GKG D TL E+ N++RE +R+ E
Sbjct: 572 AVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVTRERIRQIEA 630
Query: 499 KGLMKLKHPTRVDYLR 514
K L KL+HP+R LR
Sbjct: 631 KALRKLRHPSRARKLR 646
>gi|408479352|ref|ZP_11185571.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. R81]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|418584852|ref|ZP_13148909.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa MPAO1/P1]
gi|375045184|gb|EHS37770.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa MPAO1/P1]
Length = 617
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 173/314 (55%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+L+ D+ R + E+ ++ A++K + + +G A
Sbjct: 315 TDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEA 374
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 375 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 431
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 432 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 486
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 LGERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEMATS 541
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 542 ESLKESTREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 601
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R ++LR +
Sbjct: 602 LRHPSRSEHLRSFL 615
>gi|3646419|emb|CAA07705.1| sigma-70 factor [Pseudomonas tolaasii]
Length = 616
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>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 = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 163/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M V+ KE L K LGRE + E +
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIIFGKQVQKMMKLVEAKEALAKKLGREVSLEEWTQE 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
++ ++KK + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VGLAETELKKTVLEGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGALGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R P EI + +++ P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 187 LAQKLGRSPIPSEIAKELDLEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+++L L P++ V+ RFGL + +L ++ L++SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQRQVLALRFGLSDGNEMSLAKVGERLSLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|37678745|ref|NP_933354.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016]
gi|37197486|dbj|BAC93325.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus YJ016]
Length = 643
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K +V+ + ++D+ R + + E T++S +K + +G A
Sbjct: 345 WLDQILASDKPYVEKIKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMSIGEAKARR 404
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 405 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 461
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 462 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 516
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 517 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 571
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 572 AATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 631
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 632 SRSETLRSFL 641
>gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa]
gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa]
Length = 567
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 93/302 (30%), Positives = 160/302 (52%), Gaps = 10/302 (3%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNK 278
TE L + +Q + +++E+L++ G EP+ + A A + ++K L G ++K
Sbjct: 273 TEEVELSEGIQDLLKLERIEEELKERFGGEPSFAQWAAAAGVDQLTLRKRLNYGILCKDK 332
Query: 279 LIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWI 338
+IK N+RLV+ + K Y G QDL Q G +GL+ ++F+ + F+ STY +WI
Sbjct: 333 MIKSNVRLVISIAKNYQ---GTGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWI 389
Query: 339 RHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNIS 397
+ A+ +S++ S T R+PF + + ++ A+ +L E R P D+E+ + +S
Sbjct: 390 KQAVRKSLSDRSRTIRLPFHMVDATY-----RVKEARKQLYSENGRHPDDKEVAEAAGLS 444
Query: 398 PERYREVMKASKPILSLHSRHGVTQEEFINGIT-DVDGVENENQRQPALLRLALDDVLDS 456
+R V+ K SL + G + ++ +T D + E+ ++ L VL S
Sbjct: 445 MKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMKEFMKKDLAKVLGS 504
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E+ V+R RFG++ +TL EI + +SRE VR+ E+ KLK+ R LRQ+
Sbjct: 505 LSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFRKLKNKNRTKQLRQY 564
Query: 517 MV 518
MV
Sbjct: 565 MV 566
>gi|15595773|ref|NP_249267.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAO1]
gi|116054304|ref|YP_788749.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa
UCBPP-PA14]
gi|218889317|ref|YP_002438181.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa LESB58]
gi|254243670|ref|ZP_04936992.1| sigma factor RpoD [Pseudomonas aeruginosa 2192]
gi|296387081|ref|ZP_06876580.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAb1]
gi|313111780|ref|ZP_07797573.1| sigma factor RpoD [Pseudomonas aeruginosa 39016]
gi|355646993|ref|ZP_09054746.1| RNA polymerase sigma factor rpoD [Pseudomonas sp. 2_1_26]
gi|386056646|ref|YP_005973168.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa M18]
gi|386068504|ref|YP_005983808.1| RNA polymerase sigma factor [Pseudomonas aeruginosa NCGM2.S1]
gi|392981989|ref|YP_006480576.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa DK2]
gi|416855772|ref|ZP_11911693.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 138244]
gi|416873044|ref|ZP_11917171.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 152504]
gi|418590805|ref|ZP_13154710.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa MPAO1/P2]
gi|419756058|ref|ZP_14282410.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa
PADK2_CF510]
gi|420137171|ref|ZP_14645166.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa CIG1]
gi|421151662|ref|ZP_15611270.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
14886]
gi|421157616|ref|ZP_15616973.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
25324]
gi|421165454|ref|ZP_15623782.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
700888]
gi|421172341|ref|ZP_15630116.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa CI27]
gi|421178488|ref|ZP_15636101.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa E2]
gi|421515196|ref|ZP_15961882.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAO579]
gi|424942999|ref|ZP_18358762.1| sigma factor RpoD [Pseudomonas aeruginosa NCMG1179]
gi|451983567|ref|ZP_21931846.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 18A]
gi|133310|sp|P26480.1|RPOD_PSEAE RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-70
gi|9946447|gb|AAG03965.1|AE004494_1 sigma factor RpoD [Pseudomonas aeruginosa PAO1]
gi|216913|dbj|BAA14146.1| principal sigma factor [Pseudomonas aeruginosa]
gi|30060254|gb|AAP13091.1| RpoD [Pseudomonas sp. M18]
gi|115589525|gb|ABJ15540.1| sigma factor RpoD [Pseudomonas aeruginosa UCBPP-PA14]
gi|126197048|gb|EAZ61111.1| sigma factor RpoD [Pseudomonas aeruginosa 2192]
gi|218769540|emb|CAW25300.1| sigma factor RpoD [Pseudomonas aeruginosa LESB58]
gi|310884075|gb|EFQ42669.1| sigma factor RpoD [Pseudomonas aeruginosa 39016]
gi|334842670|gb|EGM21273.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 138244]
gi|334845342|gb|EGM23905.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 152504]
gi|346059445|dbj|GAA19328.1| sigma factor RpoD [Pseudomonas aeruginosa NCMG1179]
gi|347302952|gb|AEO73066.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa M18]
gi|348037063|dbj|BAK92423.1| RNA polymerase sigma factor [Pseudomonas aeruginosa NCGM2.S1]
gi|354828135|gb|EHF12262.1| RNA polymerase sigma factor rpoD [Pseudomonas sp. 2_1_26]
gi|375050351|gb|EHS42833.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa MPAO1/P2]
gi|384397720|gb|EIE44131.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa
PADK2_CF510]
gi|392317494|gb|AFM62874.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa DK2]
gi|403250012|gb|EJY63473.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa CIG1]
gi|404348924|gb|EJZ75261.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PAO579]
gi|404526862|gb|EKA37049.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
14886]
gi|404537937|gb|EKA47500.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa CI27]
gi|404541667|gb|EKA51018.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
700888]
gi|404548337|gb|EKA57292.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa E2]
gi|404550423|gb|EKA59172.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa ATCC
25324]
gi|451758806|emb|CCQ84369.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa 18A]
gi|453045958|gb|EME93676.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa
PA21_ST175]
Length = 617
Score = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 173/314 (55%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+L+ D+ R + E+ ++ A++K + + +G A
Sbjct: 315 TDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEA 374
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 375 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 431
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 432 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 486
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 LGERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEMATS 541
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 542 ESLKESTREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 601
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R ++LR +
Sbjct: 602 LRHPSRSEHLRSFL 615
>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 = 142 bits (359), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 102/321 (31%), Positives = 174/321 (54%), Gaps = 41/321 (12%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
+ D + +PP + K+ P+++++ K++GR D+ AE A
Sbjct: 88 TFDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEQEIKLAE 129
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++++ E AR +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 RIEQGDE---EARKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 183
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 184 YRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 238
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E+ +
Sbjct: 239 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDSEAQS 293
Query: 443 PA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+
Sbjct: 294 PSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 353
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R L+ +
Sbjct: 354 EAKALRKLRHPSRSKRLKDFL 374
>gi|409418289|ref|ZP_11258288.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. HYS]
Length = 615
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 156/280 (55%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 347 IDLESETGLTIAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 403
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 404 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 458
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 459 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 518
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 519 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 613
>gi|330831100|ref|YP_004394052.1| RNA polymerase sigma factor [Aeromonas veronii B565]
gi|406675679|ref|ZP_11082866.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AMC35]
gi|423203623|ref|ZP_17190201.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AER39]
gi|423203988|ref|ZP_17190544.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AMC34]
gi|423208255|ref|ZP_17194809.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AER397]
gi|328806236|gb|AEB51435.1| RNA polymerase sigma factor [Aeromonas veronii B565]
gi|404612918|gb|EKB09975.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AER39]
gi|404619302|gb|EKB16218.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AER397]
gi|404627069|gb|EKB23875.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AMC35]
gi|404627982|gb|EKB24770.1| RNA polymerase sigma factor rpoD [Aeromonas veronii AMC34]
Length = 618
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/319 (30%), Positives = 169/319 (52%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVF----VQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ E W Q K + V++ E +Q+ +G+ ++ E T +S AQ+K +
Sbjct: 314 NECETAWFEYQKQAGKAWSPRLVEMDEDIQRAIGKLQ---QIEEETGLSIAQIKDINRRM 370
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 371 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 427
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R
Sbjct: 428 RGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGRE 482
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA 444
P EE+ + + ++ R+V+K +K +S+ + G ++ + D +E+ PA
Sbjct: 483 PNPEELAMRMGMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLALPA 537
Query: 445 ------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
LR A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 538 DAATSESLRNATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 597
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 598 KALRKLRHPSRSEVLRSFL 616
>gi|254226294|ref|ZP_04919885.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51]
gi|125621156|gb|EAZ49499.1| RNA polymerase sigma factor RpoD [Vibrio cholerae V51]
Length = 625
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 385
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 442
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 443 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 497
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 498 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 552
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 612
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 613 PSRSEVLRSFL 623
>gi|73666941|ref|YP_302957.1| RNA polymerase sigma factor rpoD [Ehrlichia canis str. Jake]
gi|72394082|gb|AAZ68359.1| RNA polymerase, sigma 70 subunit, RpoD [Ehrlichia canis str. Jake]
Length = 622
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/256 (37%), Positives = 144/256 (56%), Gaps = 13/256 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 373 TKIQKHERAANQAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 429
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P +++ +I R ++L E+
Sbjct: 430 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINRTLRQMLHEM 484
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ +NI+ ++ R+VMK K +SL S G F + I D V+ E+
Sbjct: 485 GREPTLEELSAKLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPEDA 544
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNISREMVRKHEV 498
A LR VL +L PKE ++R RFG+ GKG D TL E+ N++RE +R+ E
Sbjct: 545 AVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVTRERIRQIEA 603
Query: 499 KGLMKLKHPTRVDYLR 514
K L KL+HP+R LR
Sbjct: 604 KALRKLRHPSRARKLR 619
>gi|163747450|ref|ZP_02154802.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45]
gi|161379303|gb|EDQ03720.1| RNA polymerase sigma factor RpoD [Oceanibulbus indolifex HEL-45]
Length = 671
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 422 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 478
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 479 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 533
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 534 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 593
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 594 IQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 647
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 648 IEAKALRKLKHPSRSRKLRSFL 669
>gi|68171251|ref|ZP_00544654.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70
region 4:Sigma-70, non-essential region:Sigma-70 region
1.2 [Ehrlichia chaffeensis str. Sapulpa]
gi|88657966|ref|YP_507558.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str.
Arkansas]
gi|67999333|gb|EAM85979.1| Sigma-70 region 1.1:Sigma-70 region 3:Sigma-70 region 2:Sigma-70
region 4:Sigma-70, non-essential region:Sigma-70 region
1.2 [Ehrlichia chaffeensis str. Sapulpa]
gi|88599423|gb|ABD44892.1| RNA polymerase sigma factor RpoD [Ehrlichia chaffeensis str.
Arkansas]
Length = 622
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/256 (37%), Positives = 144/256 (56%), Gaps = 13/256 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 373 TKIQKHERAANQAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 429
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P + ++ +I R ++L E+
Sbjct: 430 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHM-----IETVNKINRTLRQMLHEM 484
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ +NI+ ++ R+VMK K +SL S G F + I D V+ E+
Sbjct: 485 GREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPEDA 544
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNISREMVRKHEV 498
A LR VL +L PKE ++R RFG+ GKG D TL E+ N++RE +R+ E
Sbjct: 545 AVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVTRERIRQIEA 603
Query: 499 KGLMKLKHPTRVDYLR 514
K L KL+HP+R LR
Sbjct: 604 KALRKLRHPSRARKLR 619
>gi|395651014|ref|ZP_10438864.1| RNA polymerase sigma factor RpoD [Pseudomonas extremaustralis 14-3
substr. 14-3b]
Length = 616
Score = 142 bits (359), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQHKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|367476411|ref|ZP_09475795.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS
285]
gi|365271281|emb|CCD88263.1| sigma D (sigma 70) factor of RNA polymerase [Bradyrhizobium sp. ORS
285]
Length = 703
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E LA T + + +K + R A+ ++++ NL
Sbjct: 417 KNFVHYEKDRIKDLRQEVQS--LAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 474
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 475 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 531
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 532 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 586
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 587 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 640
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 641 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 700
Query: 517 M 517
+
Sbjct: 701 L 701
>gi|377579556|ref|ZP_09808522.1| RNA polymerase sigma-D factor [Escherichia hermannii NBRC 105704]
gi|377539093|dbj|GAB53687.1| RNA polymerase sigma-D factor [Escherichia hermannii NBRC 105704]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFTAALAMNKPWSEKLKDVAEDVQRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|431794831|ref|YP_007221736.1| sigma-70 family RNA polymerase sigma factor [Desulfitobacterium
dichloroeliminans LMG P-21439]
gi|430785057|gb|AGA70340.1| RNA polymerase sigma factor, sigma-70 family [Desulfitobacterium
dichloroeliminans LMG P-21439]
Length = 393
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 99/283 (34%), Positives = 155/283 (54%), Gaps = 27/283 (9%)
Query: 243 KDLGREPT-----DVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQ 296
K++GR P ++ELA K +E G +A+ +L + NLRLV+ + K+Y
Sbjct: 129 KEIGRVPLLSAEEEIELA-----------KRMEQGDESAKRRLAEANLRLVVSIAKRYV- 176
Query: 297 DFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVP 355
G F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P
Sbjct: 177 --GRGMLFLDLIQEGNLGLIKAVEKFDYVKGFKFSTYATWWIRQAITRAIADQARTIRIP 234
Query: 356 FGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLH 415
+++ ++ R +LL EL R PT EEI ++IS ER RE+MK ++ +SL
Sbjct: 235 -----VHMVETINKLIRVSRQLLQELGREPTPEEIATQMDISVERVREIMKIAQEPVSLE 289
Query: 416 SRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
+ G ++ + I D D LL+ L++VL++L P+E V+R RFGLD
Sbjct: 290 TPIGEEEDSHLGDFIPDEDAPAPSEAASFILLKEQLEEVLETLTPREEKVLRLRFGLDDG 349
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 350 RTRTLEEVGQEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYL 392
>gi|357402165|ref|YP_004914090.1| RNA polymerase principal sigma factor hrdB [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|337768574|emb|CCB77287.1| RNA polymerase principal sigma factor hrdB [Streptomyces cattleya
NRRL 8057 = DSM 46488]
Length = 517
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 275 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 331
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 332 FSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 386
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 387 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 446
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 447 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 506
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 507 SRSQVLRDYL 516
>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 = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/267 (35%), Positives = 150/267 (56%), Gaps = 13/267 (4%)
Query: 256 EATNMSAAQVKKCL---EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
E +S A+ ++ + +VG A+ +LI NLRLV+ + K+Y G F DL Q G
Sbjct: 195 EKIELSRAEQRRLMRIEQVGLDAKQQLISANLRLVVSIAKRYV---GRGMLFLDLIQEGN 251
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T +R +Q
Sbjct: 252 LGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQ 309
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGIT 430
R +LL +L R PT EEI + +SP+R RE+ K S+ +SL + G ++ + + I
Sbjct: 310 R---QLLQDLGRDPTPEEIGAEMGMSPDRVREIQKISQEPVSLETPIGEEEDSQLGDFIE 366
Query: 431 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 490
D + + ++LR L+ VLD L +E VI+ RFGL+ RTL E+ ++R
Sbjct: 367 DSTAIAPPDAASDSMLREQLEQVLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTR 426
Query: 491 EMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E +R+ E K L KL+HP+R L+ +M
Sbjct: 427 ERIRQIESKTLAKLRHPSRSSRLKDYM 453
>gi|88810991|ref|ZP_01126247.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231]
gi|88791530|gb|EAR22641.1| RNA polymerase sigma factor [Nitrococcus mobilis Nb-231]
Length = 609
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/315 (30%), Positives = 176/315 (55%), Gaps = 30/315 (9%)
Query: 219 TEHTWLFKLMQPMKVFVQ-VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---LEVGRA 274
T+ +W+ +L++ K + + V E+ Q L + + EAT ++ ++VK+ + +G A
Sbjct: 306 TDPSWVDELIRADKPYSEAVAERRQMLLEAQVGLAAIQEATGLAVSEVKEINRRMSIGEA 365
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 366 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 422
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P +E
Sbjct: 423 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRTSRQMLQEMGREPQPDE 477
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFING---ITDVDGVENENQRQ 442
+ + + + ++ R+V+K +K +S+ + G ++ +FI ++ VD E
Sbjct: 478 LAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDAAVMSPVDSATREG--- 534
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
L+ ++ +VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 535 ---LKESVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 591
Query: 503 KLKHPTRVDYLRQHM 517
KL+HPTR + LR +
Sbjct: 592 KLRHPTRSESLRSFL 606
>gi|114321663|ref|YP_743346.1| RNA polymerase sigma-70 subunit RpoD [Alkalilimnicola ehrlichii
MLHE-1]
gi|114228057|gb|ABI57856.1| RNA polymerase, sigma 70 subunit, RpoD [Alkalilimnicola ehrlichii
MLHE-1]
Length = 598
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 94/315 (29%), Positives = 170/315 (53%), Gaps = 30/315 (9%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVGRA 274
T+ WL +++ + + Q + + D+ R + ++ M+ ++K + +G A
Sbjct: 296 TDPGWLDEMLASKEPWAQRLAEHEDDIRRAQQVLIDAERKVGMTIGEIKDINRRMSIGEA 355
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 356 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 412
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P+ +E
Sbjct: 413 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVSRQMLQEMGREPSPDE 467
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQE-------EFINGITDVDGVENENQRQ 442
+ + + + ++ R+V+K +K +S+ + G ++ E IN ++ VD E
Sbjct: 468 LAERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDINAMSPVDSATREG--- 524
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LR ++ VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 525 ---LRESVKGVLSGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 581
Query: 503 KLKHPTRVDYLRQHM 517
KL+HPTR + LR +
Sbjct: 582 KLRHPTRSEGLRSFL 596
>gi|388468755|ref|ZP_10142965.1| RNA polymerase sigma factor RpoD [Pseudomonas synxantha BG33R]
gi|388012335|gb|EIK73522.1| RNA polymerase sigma factor RpoD [Pseudomonas synxantha BG33R]
Length = 616
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|152984199|ref|YP_001346113.1| RNA polymerase sigma factor RpoD [Pseudomonas aeruginosa PA7]
gi|150959357|gb|ABR81382.1| sigma factor RpoD [Pseudomonas aeruginosa PA7]
Length = 617
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 173/314 (55%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+L+ D+ R + E+ ++ A++K + + +G A
Sbjct: 315 TDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEA 374
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 375 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 431
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 432 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 486
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 LGERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEMATS 541
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 542 ESLKESTREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 601
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R ++LR +
Sbjct: 602 LRHPSRSEHLRSFL 615
>gi|423122213|ref|ZP_17109897.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5246]
gi|376392842|gb|EHT05504.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5246]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>gi|227329605|ref|ZP_03833629.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp.
carotovorum WPP14]
Length = 611
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T +TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 307 NETNNTWFAAAVAMGKPWSEKLNDVEEDVTRSLQKLQQIEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>gi|157372533|ref|YP_001480522.1| RNA polymerase sigma factor RpoD [Serratia proteamaculans 568]
gi|157324297|gb|ABV43394.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia proteamaculans
568]
Length = 647
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 343 NETSDTWFAAALAMAKPWSEKLKDVADDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 402
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 403 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 459
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 460 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 514
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 515 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 573
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 574 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 628
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 629 LRKLRHPSRSEVLRSFL 645
>gi|148257986|ref|YP_001242571.1| RNA polymerase sigma factor RpoD [Bradyrhizobium sp. BTAi1]
gi|146410159|gb|ABQ38665.1| RNA polymerase, sigma 70 subunit, RpoD [Bradyrhizobium sp. BTAi1]
Length = 702
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E LA T + + +K + R A+ ++++ NL
Sbjct: 416 KNFVHYEKDRIKDLRQEVQS--LAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 473
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 474 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 530
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 531 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 585
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 586 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 639
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 640 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 699
Query: 517 M 517
+
Sbjct: 700 L 700
>gi|335033368|ref|ZP_08526736.1| RNA polymerase sigma factor [Agrobacterium sp. ATCC 31749]
gi|333795306|gb|EGL66635.1| RNA polymerase sigma factor [Agrobacterium sp. ATCC 31749]
Length = 684
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
L+ T +S A+ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 418 LSTETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 474
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 529
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 530 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 589
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 590 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 644
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 645 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>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 = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 99/312 (31%), Positives = 162/312 (51%), Gaps = 9/312 (2%)
Query: 195 EYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL 254
E+SY+ D VS+ K+ P+LS + + + +Q M V KE+L + L REPT E
Sbjct: 17 EFSYTADAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEW 76
Query: 255 AEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKG 314
A+ + + + L G+ A+ K+I+ NLRLV+ + KKY + F DL Q G G
Sbjct: 77 ADKMQLKEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQK---RNLEFLDLIQEGALG 133
Query: 315 LITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRA 373
L +++F+P ++ STY +WIR I R++ S T R+P + +I+
Sbjct: 134 LERGVEKFDPTLGYKFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKL-----NKIKCV 188
Query: 374 KLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVD 433
+ EL +L + EI Q +N+ P + RE ++ + +SL R G Q+ + + D
Sbjct: 189 QRELSQKLGYIAGVTEIAQALNLEPSQIREYLQLVRQPVSLDMRIGFEQDTQLQDLLKDD 248
Query: 434 GVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
G+ E + LL + ++L L P++ V+ RFGL G + TL +I+ + ISRE V
Sbjct: 249 GMSPERYAERELLYQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERV 308
Query: 494 RKHEVKGLMKLK 505
R+ E + L L+
Sbjct: 309 RQVEKQALTLLR 320
>gi|422659022|ref|ZP_16721452.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
lachrymans str. M302278]
gi|331017645|gb|EGH97701.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
lachrymans str. M302278]
Length = 616
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 168/313 (53%), Gaps = 28/313 (8%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA- 274
+ +W L + + + +LQ D+ R + L E T + A++K + +G A
Sbjct: 315 DESWTDGLAKGKGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAK 374
Query: 275 ---ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 375 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 431
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 432 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 486
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 GERMEMPEDKIRKVLKITKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVE 541
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 542 SLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601
Query: 505 KHPTRVDYLRQHM 517
+HPTR ++LR +
Sbjct: 602 RHPTRSEHLRSFL 614
>gi|262189558|ref|ZP_06047968.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93]
gi|262034560|gb|EEY52890.1| RNA polymerase sigma factor RpoD [Vibrio cholerae CT 5369-93]
Length = 522
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 224 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 282
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 283 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 339
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 340 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAE 394
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 395 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 449
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 450 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 509
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 510 PSRSEVLRSFL 520
>gi|336247240|ref|YP_004590950.1| RNA polymerase sigma factor RpoD [Enterobacter aerogenes KCTC 2190]
gi|444354644|ref|YP_007390788.1| RNA polymerase sigma factor RpoD [Enterobacter aerogenes EA1509E]
gi|334733296|gb|AEG95671.1| RNA polymerase sigma factor RpoD [Enterobacter aerogenes KCTC 2190]
gi|443905474|emb|CCG33248.1| RNA polymerase sigma factor RpoD [Enterobacter aerogenes EA1509E]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAAVAMNKPWSEKLHDVKEDVQRGLQKLQ---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>gi|403057012|ref|YP_006645229.1| sigma-70 factor (RpoD) [Pectobacterium carotovorum subsp.
carotovorum PCC21]
gi|402804338|gb|AFR01976.1| putative sigma-70 factor (RpoD) [Pectobacterium carotovorum subsp.
carotovorum PCC21]
Length = 611
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T +TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 307 NETNNTWFAAAVAMGKPWSEKLNDVEEDVTRSLQKLQQIEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>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 = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 100/314 (31%), Positives = 167/314 (53%), Gaps = 30/314 (9%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV------- 271
+ TWL ++ + K + E + R ++V ++A AT M+ + ++ + +
Sbjct: 374 DDTWLPEMSRKDKKWAAFAENEADSVERIRSEVSDIAAATGMALPEFRRIVNMVQKGERE 433
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 434 ARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 490
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E R PT EE+
Sbjct: 491 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEM 545
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQP 443
+ +++ E+ R+VMK +K +SL + G ++ +FI N I VD N
Sbjct: 546 AERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN---- 601
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L K
Sbjct: 602 --LKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 659
Query: 504 LKHPTRVDYLRQHM 517
LKHP+R +R +
Sbjct: 660 LKHPSRSRKMRSFL 673
>gi|218780916|ref|YP_002432234.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfatibacillum
alkenivorans AK-01]
gi|218762300|gb|ACL04766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfatibacillum
alkenivorans AK-01]
Length = 595
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/279 (34%), Positives = 156/279 (55%), Gaps = 25/279 (8%)
Query: 251 DVELA-EATNMSAAQVKKCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
D ELA +A +++ +V+ C+ GR A+ +LI+ NLRLV+ + KKY G +F
Sbjct: 328 DRELALKANSLALKRVRACIWTGRGKAKDAKAELIRANLRLVVSIAKKYTN---RGLQFL 384
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI R++ + T R+P ++
Sbjct: 385 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMI 439
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE 424
+ ++ R L+ EL R PT EEI Q + E+ R V+K +K +SL + G ++
Sbjct: 440 ETINKLIRTSRYLVQELGREPTPEEIAQKMEFPLEKVRRVLKIAKEPISLETPIGEEEDS 499
Query: 425 FINGITDVDGVENENQRQPALLRLALD------DVLDSLKPKESLVIRQRFGLDGKGDRT 478
+ D +E++ P+ ++L+ VL +L P+E V+R RFG+ K D T
Sbjct: 500 HLG-----DFIEDKKFMLPSEAAISLNLAEQTRKVLATLTPREEKVLRMRFGIGEKADHT 554
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ + +++RE +R+ E K L KL+HP+R L+ +
Sbjct: 555 LEEVGKDFSVTRERIRQIEAKALRKLRHPSRSQKLKSFI 593
>gi|395235398|ref|ZP_10413610.1| RNA polymerase sigma factor RpoD [Enterobacter sp. Ag1]
gi|394729932|gb|EJF29847.1| RNA polymerase sigma factor RpoD [Enterobacter sp. Ag1]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + ++ +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHEVSEDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|419959930|ref|ZP_14475978.1| RNA polymerase sigma factor RpoD [Enterobacter cloacae subsp.
cloacae GS1]
gi|388605210|gb|EIM34432.1| RNA polymerase sigma factor RpoD [Enterobacter cloacae subsp.
cloacae GS1]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVKEDVQRGLQKLH---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>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 = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 141/249 (56%), Gaps = 10/249 (4%)
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
VG A+ +LI NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+
Sbjct: 213 VGLDAKQQLISANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKF 269
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI R++ + T R+P + T +R +QR +LL + R PT EE
Sbjct: 270 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDFGRDPTPEE 324
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRL 448
I + +SP+R RE+ K S+ +SL + G ++ + + I D V + ++LR
Sbjct: 325 IGSEMGMSPDRVREIQKISQEPVSLETPIGEEEDSQLGDFIEDSTAVAPPDAASDSMLRE 384
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
L+ VLDSL +E VI+ RFGL+ RTL E+ ++RE +R+ E K L KL+HP+
Sbjct: 385 QLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTRERIRQIESKTLAKLRHPS 444
Query: 509 RVDYLRQHM 517
R L+ +M
Sbjct: 445 RSGRLKDYM 453
>gi|170723972|ref|YP_001751660.1| RNA polymerase sigma factor RpoD [Pseudomonas putida W619]
gi|169761975|gb|ACA75291.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudomonas putida W619]
Length = 616
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 156/280 (55%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLETETGLTVAEIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|407787161|ref|ZP_11134303.1| RNA polymerase sigma factor RpoD [Celeribacter baekdonensis B30]
gi|407199987|gb|EKE69999.1| RNA polymerase sigma factor RpoD [Celeribacter baekdonensis B30]
Length = 666
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 417 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 473
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 474 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 528
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 529 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDAA 588
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 589 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 642
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 643 IEAKALRKLKHPSRSRKLRSFL 664
>gi|385799581|ref|YP_005835985.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halanaerobium
praevalens DSM 2228]
gi|309388945|gb|ADO76825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium
praevalens DSM 2228]
Length = 364
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 91/257 (35%), Positives = 145/257 (56%), Gaps = 11/257 (4%)
Query: 264 QVKKCLEVGRA-ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++ K +E G A+ +L++ NLRLV+ + KKY G F DL Q G GL+ A+D+F
Sbjct: 115 ELAKRMEQGEEWAKQQLVQANLRLVVSIAKKYV---GRGMLFLDLIQEGNMGLMKAVDKF 171
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ + ++ STY +WIR AI RS+ + T RVP +++ ++ R +LL E
Sbjct: 172 DYTKGYKFSTYATWWIRQAITRSIADQARTIRVP-----VHMVETINKLIRVSRQLLQEK 226
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQ 440
R P DEEI ++IS E+ RE+MK S+ +SL + G ++ + I DVD +
Sbjct: 227 GREPKDEEIGAEMDISAEKVREIMKISQDPVSLETPIGEEEDSHLGDFIEDVDSPAPASA 286
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LL+ L+DVLD+L +E V+ RFG++ RTL E+ ++RE +R+ E K
Sbjct: 287 ASYILLKEQLNDVLDTLTDREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKA 346
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R ++ ++
Sbjct: 347 LRKLRHPSRSKKIKDYL 363
>gi|171914125|ref|ZP_02929595.1| RNA polymerase sigma factor RpoD [Verrucomicrobium spinosum DSM
4136]
Length = 576
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/240 (38%), Positives = 139/240 (57%), Gaps = 13/240 (5%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G F DL Q G GL+ A+++FE KR ++ STY
Sbjct: 336 AKTEMVEANLRLVISIAKKYTN---RGLSFLDLIQEGNMGLMRAVEKFEYKRGYKFSTYA 392
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + T ++ R + +L+ EL R PT +EI +
Sbjct: 393 TWWIRQAITRSIADQARTIRIPVHMIDTI-----NKLLRVQKQLVQELGRDPTPDEIAEE 447
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQ--EEFINGITDVDGVENENQRQPALLRLALD 451
+++ ER V++ S+ +SL ++ G + EF + I D V LLR L
Sbjct: 448 IHLPVERVNAVLRMSQQPVSLQTKVGDSDGDTEFGDFIEDNTSVSPMELTAMNLLRDKLK 507
Query: 452 DVLDSLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRV 510
DVLDSL +E V+ QRFGL DG G RTL E+ +++RE +R+ E K L KL+HPTR+
Sbjct: 508 DVLDSLTDRERAVLEQRFGLVDGSG-RTLEEVGRQFHVTRERIRQIEAKALRKLRHPTRI 566
>gi|386358237|ref|YP_006056483.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
gi|365808745|gb|AEW96961.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
Length = 498
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 256 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 312
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 313 FSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 367
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 368 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 427
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 428 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 487
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 488 SRSQVLRDYL 497
>gi|417859416|ref|ZP_12504472.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens F2]
gi|418297180|ref|ZP_12909022.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens
CCNWGS0286]
gi|338822480|gb|EGP56448.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens F2]
gi|355538278|gb|EHH07525.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens
CCNWGS0286]
Length = 684
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 162/310 (52%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + K+ RE ++ L+ T +S A+ ++ + + R
Sbjct: 386 MKSIANLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARI 445
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 446 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 502
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ +I R ++L E+ R PT EE+ +
Sbjct: 503 TWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEK 557
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 558 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 612
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 613 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 672
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 673 SRSRKLRSFL 682
>gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
Length = 318
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 102/309 (33%), Positives = 160/309 (51%), Gaps = 16/309 (5%)
Query: 208 KKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT--NMSAAQV 265
K M +L E L + +Q + + +V+E+L+ L R PT E A A M+ Q+
Sbjct: 8 KTMGNHDLLQKNEEIILAREIQILIKWEEVREELEGQLLRPPTYQEWANAIEPGMTVTQI 67
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
KK + A+ L + NLRLV+ + K+Y G QDLCQ G GL A ++F+P+
Sbjct: 68 KKQIRRSLRAKAALTESNLRLVISIAKRYQ---GRGLNMQDLCQEGTLGLTRACEKFDPE 124
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL-ESTSIMQVRGEIQRAKLELLFELKR 383
R FR STY +WI+ I+R++ + T R+P + + SI +++A+ +L EL R
Sbjct: 125 RGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLSI------VRKAERDLQNELGR 178
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
T EE+ V + P++ + +AS +S+ G + E I D G ++
Sbjct: 179 DATKEEVAAKVGMKPDKIEFLKRASVGSISMEQELGTSGSERSFTIQDTLGDPDQKPVDM 238
Query: 444 ALLRLALDDV---LDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
A R+ DDV + +L +E VIR RFGLD +TL EI +++RE +R+ E +
Sbjct: 239 AQYRMLQDDVGRLICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTRERIRQIEARA 298
Query: 501 LMKLKHPTR 509
L KL+ P R
Sbjct: 299 LHKLRQPYR 307
>gi|28867765|ref|NP_790384.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato
str. DC3000]
gi|213967690|ref|ZP_03395837.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1]
gi|301382750|ref|ZP_07231168.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato
Max13]
gi|302064027|ref|ZP_07255568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato
K40]
gi|302130708|ref|ZP_07256698.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. tomato
NCPPB 1108]
gi|422296553|ref|ZP_16384220.1| RNA polymerase sigma-70 factor [Pseudomonas avellanae BPIC 631]
gi|422591085|ref|ZP_16665734.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
morsprunorum str. M302280]
gi|28851000|gb|AAO54079.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato
str. DC3000]
gi|213927466|gb|EEB61014.1| RNA polymerase sigma-70 factor [Pseudomonas syringae pv. tomato T1]
gi|330878419|gb|EGH12568.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
morsprunorum str. M302280]
gi|407992237|gb|EKG33910.1| RNA polymerase sigma-70 factor [Pseudomonas avellanae BPIC 631]
Length = 616
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 168/313 (53%), Gaps = 28/313 (8%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA- 274
+ +W L + + + +LQ D+ R + L E T + A++K + +G A
Sbjct: 315 DESWTDGLAKGKGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAK 374
Query: 275 ---ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 375 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 431
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 432 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 486
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 GERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVE 541
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 542 SLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601
Query: 505 KHPTRVDYLRQHM 517
+HPTR ++LR +
Sbjct: 602 RHPTRSEHLRSFL 614
>gi|296129901|ref|YP_003637151.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas
flavigena DSM 20109]
gi|296021716|gb|ADG74952.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas
flavigena DSM 20109]
Length = 495
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 255 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 311
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 312 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 366
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 367 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 426
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 427 LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 486
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 487 SQVLRDYL 494
>gi|312110191|ref|YP_003988507.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacillus sp.
Y4.1MC1]
gi|336234655|ref|YP_004587271.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geobacillus
thermoglucosidasius C56-YS93]
gi|423719224|ref|ZP_17693406.1| RNA polymerase, rpoD subfamily, sigma-70 subunit [Geobacillus
thermoglucosidans TNO-09.020]
gi|311215292|gb|ADP73896.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp.
Y4.1MC1]
gi|335361510|gb|AEH47190.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus
thermoglucosidasius C56-YS93]
gi|383368127|gb|EID45402.1| RNA polymerase, rpoD subfamily, sigma-70 subunit [Geobacillus
thermoglucosidans TNO-09.020]
Length = 377
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/325 (31%), Positives = 172/325 (52%), Gaps = 51/325 (15%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVPLLSAEEEIELA---- 130
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 131 ------KRIEQGDEEAKRRLTEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 181
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 182 EKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 236
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
+L R PT EEI + ++++PE+ RE++K ++ +SL + G + + D +E++
Sbjct: 237 QDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQ 291
Query: 439 NQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE
Sbjct: 292 EATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRER 351
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP+R L+ +
Sbjct: 352 IRQIEAKALRKLRHPSRSKRLKDFL 376
>gi|27364091|ref|NP_759619.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6]
gi|320157475|ref|YP_004189854.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O]
gi|27360209|gb|AAO09146.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus CMCP6]
gi|319932787|gb|ADV87651.1| RNA polymerase sigma factor RpoD [Vibrio vulnificus MO6-24/O]
Length = 624
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K +V+ + ++D+ R + + E T++S +K + +G A
Sbjct: 326 WLDQILASDKPYVEKIKLHEEDIRRSIAKLRAIEEETSLSVNNIKDISRRMSIGEAKARR 385
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 442
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 443 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 497
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 498 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 552
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 553 AATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 612
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 613 SRSETLRSFL 622
>gi|384044875|ref|YP_005492892.1| RNA polymerase sigma factor [Bacillus megaterium WSH-002]
gi|345442566|gb|AEN87583.1| RNA polymerase sigma factor [Bacillus megaterium WSH-002]
Length = 377
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 166/315 (52%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V+L A
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAEE-EINL 129
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 AKRIEEGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 186
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 187 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 241
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P+ EEI + ++++PE+ RE++K ++ +SL + G + + I D D
Sbjct: 242 EPSPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSEHAA 301
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 302 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 361
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 362 KLRHPSRSKRLKDFL 376
>gi|333024008|ref|ZP_08452072.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071]
gi|332743860|gb|EGJ74301.1| putative RNA polymerase sigma factor RpoS [Streptomyces sp. Tu6071]
Length = 493
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 251 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 307
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 308 FSTYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPE 362
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 363 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 422
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 423 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 482
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 483 SRSQVLRDYL 492
>gi|343506739|ref|ZP_08744209.1| RNA polymerase sigma factor RpoD [Vibrio ichthyoenteri ATCC 700023]
gi|342801842|gb|EGU37298.1| RNA polymerase sigma factor RpoD [Vibrio ichthyoenteri ATCC 700023]
Length = 619
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVG 272
+ + + WL +++ K + Q + D+ R +++ E T+++ +K + +G
Sbjct: 315 NESSNAWLDEVLASDKPYADKIRQSEDDIRRSILKLKIIEEETSLTVQSIKDISRRMSIG 374
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 375 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 431
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 432 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 486
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 487 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 541
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 542 TATSLRAATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 601
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 602 RKLRHPSRSETLRSFL 617
>gi|404330390|ref|ZP_10970838.1| RNA polymerase sigma factor RpoD [Sporolactobacillus vineae DSM
21990 = SL153]
Length = 369
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 99/299 (33%), Positives = 166/299 (55%), Gaps = 32/299 (10%)
Query: 226 KLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLR 285
K+ P+++++ K++GR V+L A + A K+ A+ +L + NLR
Sbjct: 95 KINDPVRMYL-------KEIGR----VDLLSA-DEEIALAKRIKAGDEEAKRRLAEANLR 142
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + K+Y G F DL Q G GLI A+++F+ + F+ STY +WIR AI R+
Sbjct: 143 LVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDYTKGFKFSTYATWWIRQAITRA 199
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P + T +R +QR +L+ +L R PT EEI + +++SPE+ RE+
Sbjct: 200 IADQARTIRIPVHMVETINKLIR--VQRQELQ---DLGREPTPEEIGKKMDLSPEKVREI 254
Query: 405 MKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLK 458
+K ++ +SL + G + + D +E+++ + P+ LL+ L+DVLD+L
Sbjct: 255 LKIAQEPVSLETPIGEEDDSHLG-----DFIEDQDAKAPSDAAAYELLKEQLEDVLDTLT 309
Query: 459 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 310 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 368
>gi|294501280|ref|YP_003564980.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551]
gi|295706627|ref|YP_003599702.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319]
gi|294351217|gb|ADE71546.1| RNA polymerase sigma factor [Bacillus megaterium QM B1551]
gi|294804286|gb|ADF41352.1| RNA polymerase sigma factor [Bacillus megaterium DSM 319]
Length = 377
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/318 (31%), Positives = 169/318 (53%), Gaps = 37/318 (11%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL---AEATNMS 261
D + +PP + K+ P+++++ K++GR V+L E N++
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAEEEINLA 130
Query: 262 AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDR 321
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++
Sbjct: 131 ----KRIEEGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEK 183
Query: 322 FEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFE 380
F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +
Sbjct: 184 FDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQD 238
Query: 381 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENEN 439
L R P+ EEI + ++++PE+ RE++K ++ +SL + G + + I D D
Sbjct: 239 LGREPSPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSE 298
Query: 440 QRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 499
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K
Sbjct: 299 HAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 358
Query: 500 GLMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ +
Sbjct: 359 ALRKLRHPSRSKRLKDFL 376
>gi|126730240|ref|ZP_01746051.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37]
gi|126708973|gb|EBA08028.1| RNA polymerase sigma factor RpoD [Sagittula stellata E-37]
Length = 667
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 418 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 474
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 475 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 529
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 530 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 589
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 590 IQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 643
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 644 IEAKALRKLKHPSRSRKLRSFL 665
>gi|107099562|ref|ZP_01363480.1| hypothetical protein PaerPA_01000575 [Pseudomonas aeruginosa PACS2]
Length = 604
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 91/314 (28%), Positives = 173/314 (55%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+L+ D+ R + E+ ++ A++K + + +G A
Sbjct: 302 TDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAMSIGEA 361
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 362 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 418
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 419 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 473
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 474 LGERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEMATS 528
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 529 ESLKESTREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 588
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R ++LR +
Sbjct: 589 LRHPSRSEHLRSFL 602
>gi|404398429|ref|ZP_10990013.1| RNA polymerase sigma factor RpoD [Pseudomonas fuscovaginae UPB0736]
Length = 615
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 169/313 (53%), Gaps = 28/313 (8%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA- 274
+ +W L + + + +LQ D+ R + EA T ++ A++K + +G A
Sbjct: 314 DESWTDALAKGKSKYAEAIGRLQPDIIRCQQKLTALEAETGLTIAEIKDINRRMSIGEAK 373
Query: 275 ---ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 374 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 430
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 431 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 485
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 486 GERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVE 540
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 541 SLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 600
Query: 505 KHPTRVDYLRQHM 517
+HPTR ++LR +
Sbjct: 601 RHPTRSEHLRSFL 613
>gi|402488284|ref|ZP_10835096.1| RNA polymerase sigma factor RpoD [Rhizobium sp. CCGE 510]
gi|401812675|gb|EJT05025.1| RNA polymerase sigma factor RpoD [Rhizobium sp. CCGE 510]
Length = 685
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|374336959|ref|YP_005093646.1| RNA polymerase sigma factor RpoD [Oceanimonas sp. GK1]
gi|372986646|gb|AEY02896.1| RNA polymerase sigma factor RpoD [Oceanimonas sp. GK1]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 167/317 (52%), Gaps = 34/317 (10%)
Query: 219 TEHTWLFKLMQPMKVFV----QVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---LEV 271
+E W + K + V E + + +G+ T + E T ++ +Q+K + +
Sbjct: 312 SEQAWFNAQLAAGKTWSARLQDVSEDVLRAIGKLKT---VEEETGLTISQIKDINRRMSI 368
Query: 272 GRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRR 327
G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R
Sbjct: 369 GEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRG 425
Query: 328 FRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPT 386
++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 YKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPT 480
Query: 387 DEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA-- 444
EE+ + + ++ R+V+K +K +S+ + G ++ + D +E+ PA
Sbjct: 481 PEELAHRMAMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLSLPADS 535
Query: 445 ----LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 536 ATSESLRNATKDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|334125660|ref|ZP_08499649.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterobacter
hormaechei ATCC 49162]
gi|333387123|gb|EGK58327.1| DNA-directed RNA polymerase sigma subunit RpoD [Enterobacter
hormaechei ATCC 49162]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVKEDVQRGLQKLH---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>gi|295097580|emb|CBK86670.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae subsp.
cloacae NCTC 9394]
Length = 614
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + VKE +Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVKEDVQRGLQKLH---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>gi|260425299|ref|ZP_05779279.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45]
gi|260423239|gb|EEX16489.1| RNA polymerase sigma factor RpoD [Citreicella sp. SE45]
Length = 665
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 416 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 472
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 473 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 527
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 528 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 587
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 588 IQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 641
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 642 IEAKALRKLKHPSRSRKLRSFL 663
>gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba]
Length = 575
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 90/306 (29%), Positives = 163/306 (53%), Gaps = 10/306 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L++ E L + +Q + +++ +L + G +PT + A A + ++K + G
Sbjct: 272 LLTAREEQQLSEGIQDLLKLERLQAELTERCGHQPTFSQWASAAGVDKKTLRKRITHGTQ 331
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
++++IK N+RLV+ + K Y G FQDL Q G +GL+ ++F+ + F+ STY
Sbjct: 332 CKDRMIKSNIRLVISIAKNYQ---GAGMDFQDLVQEGCRGLVRGAEKFDATKGFKFSTYA 388
Query: 335 LFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WI+ A+ +S++ S R+PF + ++ ++ A+ +L E + P +EE+ +
Sbjct: 389 HWWIKQAVRKSLSDQSRMIRLPFHM-----VEATYRVKEARKQLYSETGKQPKNEEVAEA 443
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDD 452
+S +R V+ + KP SL + G+ + I D + +E+ +R LD
Sbjct: 444 TGLSMKRLMAVLLSPKPPRSLDQKIGINLNLKPSEVIADPEAETSEDILMKQFMRQDLDK 503
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLDSL +E VIR RFG++ +TL EI + +SRE VR+ + KLK+ R +
Sbjct: 504 VLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQIDTSAFRKLKNKKRNSH 563
Query: 513 LRQHMV 518
L+Q++V
Sbjct: 564 LQQYLV 569
>gi|297570260|ref|YP_003691604.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio
alkaliphilus AHT2]
gi|296926175|gb|ADH86985.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfurivibrio
alkaliphilus AHT2]
Length = 555
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 89/251 (35%), Positives = 140/251 (55%), Gaps = 14/251 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
AQ+ E+ R A+N+L++ NLRLV+ V KKY G + DL Q G GL+ A+++F
Sbjct: 304 AQISLGEEISREAKNRLVQSNLRLVVSVAKKYA---GRGLQLLDLVQEGNIGLMKAVEKF 360
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG--EIQRAKLELLF 379
E +R ++ STY +WIR A+ R++ T R+P + T ++G E QR
Sbjct: 361 EYRRGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMIDTINRMLKGAKEYQR------- 413
Query: 380 ELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENE 438
+ R PT EE+ + + + + + ++K +K LSL + G ++ F++ I D D +
Sbjct: 414 QHGREPTPEEMAEHLGVDIAKVKSILKIAKEPLSLDTPVGSGEDSFLSDFIEDADSTSPD 473
Query: 439 NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ L VL +L P+E +V+R RFG+D D TL E+ N +++RE +R+ E
Sbjct: 474 EATIYDSLQDNLARVLKTLTPREEMVLRLRFGIDTATDLTLEEVGENFSVTRERIRQIEA 533
Query: 499 KGLMKLKHPTR 509
K L KLKHPTR
Sbjct: 534 KALKKLKHPTR 544
>gi|229507128|ref|ZP_04396634.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286]
gi|229509009|ref|ZP_04398497.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33]
gi|229512571|ref|ZP_04402042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21]
gi|229519677|ref|ZP_04409120.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9]
gi|229520813|ref|ZP_04410235.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80]
gi|229530331|ref|ZP_04419719.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)]
gi|229606193|ref|YP_002876841.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236]
gi|229332104|gb|EEN97592.1| RNA polymerase sigma factor RpoD [Vibrio cholerae 12129(1)]
gi|229342046|gb|EEO07042.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TM 11079-80]
gi|229344366|gb|EEO09341.1| RNA polymerase sigma factor RpoD [Vibrio cholerae RC9]
gi|229350464|gb|EEO15413.1| RNA polymerase sigma factor RpoD [Vibrio cholerae TMA 21]
gi|229353934|gb|EEO18868.1| RNA polymerase sigma factor RpoD [Vibrio cholerae B33]
gi|229355873|gb|EEO20793.1| RNA polymerase sigma factor RpoD [Vibrio cholerae BX 330286]
gi|229368848|gb|ACQ59271.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MJ-1236]
Length = 642
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 97/311 (31%), Positives = 173/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K +V +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 344 WLDKVLASDKPYVAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 402
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 403 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 459
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 460 ATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAE 514
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 515 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 569
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 570 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 629
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 630 PSRSEVLRSFL 640
>gi|395796283|ref|ZP_10475581.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. Ag1]
gi|421139627|ref|ZP_15599661.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens BBc6R8]
gi|395339585|gb|EJF71428.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. Ag1]
gi|404509199|gb|EKA23135.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens BBc6R8]
Length = 616
Score = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 168/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + + Q D+ R + L T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRFQADIVRCQQKLTALQTETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>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 = 142 bits (358), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 224 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 280
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT +E+
Sbjct: 281 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPDEL 335
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + + + LL+
Sbjct: 336 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQ 395
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +ES V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 396 LHAVLDTLSERESGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 455
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 456 SQVLRDYL 463
>gi|421253672|ref|ZP_15708805.1| RNA polymerase sigma factor RpoD, partial [Pasteurella multocida
subsp. multocida str. Anand1_buffalo]
gi|401693759|gb|EJS87715.1| RNA polymerase sigma factor RpoD, partial [Pasteurella multocida
subsp. multocida str. Anand1_buffalo]
Length = 539
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 240 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 298
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 299 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 355
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE+
Sbjct: 356 YATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEELA 410
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 411 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 465
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 466 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 525
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 526 HPSRSETLRSFL 537
>gi|383816574|ref|ZP_09971969.1| RNA polymerase sigma factor RpoD [Serratia sp. M24T3]
gi|383294568|gb|EIC82907.1| RNA polymerase sigma factor RpoD [Serratia sp. M24T3]
Length = 612
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++ +D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETNQTWFEAALAMAKPWSEKLKEVTEDVQRGLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 85/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 129 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 185
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 186 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 240
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++I+P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 241 MDITPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 300
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 301 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 360
Query: 513 LRQHM 517
LR +
Sbjct: 361 LRDFI 365
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 171/313 (54%), Gaps = 17/313 (5%)
Query: 201 DLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQ---LQKDLGREPTDVELAEA 257
D V +K+M P+L + E +L + ++ V+V+E LQK L R+P EL
Sbjct: 88 DAVGAFFKEMARYPLLKADEEV---ELARRVRFLVEVEETQRGLQKQLKRQPNREELIAE 144
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
+S Q++ L +GR A+ K+I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 145 LGISDKQLEHQLYLGRVAKRKMIRSNLRLVVSIAKRYLN---RGLPFLDLIQEGAMGLNR 201
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
A ++F+P + ++ STY +WIR AI R++ + T R+P I++ ++++ + E
Sbjct: 202 ATEKFDPDKGYKFSTYAYWWIRQAITRAIANDARTIRLPI-----HIVEKLNKLKKYQRE 256
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGV 435
L +L+R P++ E+ + + PE+ R++ + + LSL+ R G ++ E ++ + D D
Sbjct: 257 LKQKLQRNPSEIELAAALEVPPEQLRQLQQLRRKALSLNHRVGKEEDTELVDLLEDNDAQ 316
Query: 436 ENENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
E Q ++R + DVL D L P+E VI R+GL TL E+ N+SRE VR
Sbjct: 317 SPEQQMSETMMRQEIWDVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVR 376
Query: 495 KHEVKGLMKLKHP 507
+ + K + KL+ P
Sbjct: 377 QIQSKAMRKLRRP 389
>gi|56696627|ref|YP_166988.1| RNA polymerase sigma factor RpoD [Ruegeria pomeroyi DSS-3]
gi|56678364|gb|AAV95030.1| RNA polymerase sigma-70 factor RpoD [Ruegeria pomeroyi DSS-3]
Length = 660
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 411 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 467
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 468 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 522
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 523 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 582
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 583 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 637 IEAKALRKLKHPSRSRKLRSFL 658
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 90/259 (34%), Positives = 147/259 (56%), Gaps = 20/259 (7%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ +
Sbjct: 127 KRMEEGDEVAKKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYR 183
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL E R
Sbjct: 184 KGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQEYGRE 238
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA 444
PT EEI + +N+S ER RE++K S+ +SL + G ++ + D +++EN PA
Sbjct: 239 PTPEEIAKNMNMSVERVREILKISQEPVSLETPIGEEEDSHLG-----DFIQDENVPVPA 293
Query: 445 ------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
+L+ L++VL +L +E V+R RFGLD RTL E+ N++RE +R+ E
Sbjct: 294 DAAAFTMLKEQLEEVLGTLAEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEA 353
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ ++
Sbjct: 354 KALRKLRHPSRSRKLKDYL 372
>gi|325293528|ref|YP_004279392.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3]
gi|418407154|ref|ZP_12980472.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens 5A]
gi|325061381|gb|ADY65072.1| RNA polymerase sigma factor RpoD [Agrobacterium sp. H13-3]
gi|358006298|gb|EHJ98622.1| RNA polymerase sigma factor RpoD [Agrobacterium tumefaciens 5A]
Length = 684
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
L+ T +S A+ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 418 LSTETGISIAEFRRIVSMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 474
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 529
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 530 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 589
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 590 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 644
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 645 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>gi|119474865|ref|ZP_01615218.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143]
gi|119451068|gb|EAW32301.1| RNA polymerase sigma factor [marine gamma proteobacterium HTCC2143]
Length = 600
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 87/271 (32%), Positives = 152/271 (56%), Gaps = 24/271 (8%)
Query: 258 TNMSAAQVKKCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
T + ++ + + +G A A+ ++++ NLRLV+ + KKY G +F DL Q G
Sbjct: 341 TILDIKEINRRMSIGEARARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNI 397
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++ ++ R
Sbjct: 398 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNR 452
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDV 432
++L E+ R PT EE+ + +++ ++ R+V+K +K +S+ + G ++ +
Sbjct: 453 ISRQMLQEMGREPTPEELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG----- 507
Query: 433 DGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 486
D +E+ QP L+ A DVL L +E+ V+R RFG+D D TL E+
Sbjct: 508 DFIEDNTIAQPVDSATGQGLQEATKDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQF 567
Query: 487 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R D+LR +
Sbjct: 568 DVTRERIRQIEAKALRKLRHPSRSDHLRSFL 598
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 98/308 (31%), Positives = 164/308 (53%), Gaps = 9/308 (2%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+TDLV +++ P+L+ E + K +Q + +E L LGR+PT E A+AT
Sbjct: 21 ATDLVRTYLREIGRVPLLTHEEEIFYGKQVQRSCTLHESRESLATQLGRQPTLEEWAKAT 80
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+ ++ + + G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 81 KLEPVELNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGSIGMQRG 137
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ + T R+P I + +I++A+ +L
Sbjct: 138 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPI-----HITEKLNKIKKAQRQL 192
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
+L R PT E+ Q + ++P++ RE ++ ++ LSL R G + + + + G
Sbjct: 193 SQKLGRAPTAGELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGASP 252
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E + L LD ++ L P++ VI RFGL TL +I LNISRE VR+ E
Sbjct: 253 EEFVMQSSLSYDLDRLMGDLTPQQREVITLRFGLTDGQALTLAKIGEILNISRERVRQIE 312
Query: 498 VKGLMKLK 505
+ L KL+
Sbjct: 313 REALTKLR 320
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 172/315 (54%), Gaps = 12/315 (3%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
SY D + +K+M P+L E L ++ M ++++QL++ L R+PT E +
Sbjct: 51 SYIDDNIGAFFKEMARYPLLKPEEEVELANCVKVMVQAEEIRQQLKEQLNRQPTKEEWTK 110
Query: 257 ATNM-SAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGL 315
A + S Q++ L GR A+ K+I+ NLRLV+ + K+Y G F DL Q G GL
Sbjct: 111 ALQLESIRQLENRLYRGRVAKRKMIRSNLRLVVSIAKRYLN---RGVPFLDLIQEGAIGL 167
Query: 316 ITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAK 374
A ++F+P + ++ STY +WIR AI R++ + T R+P I++ ++++A+
Sbjct: 168 NRATEKFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPI-----HIVEKLNKLKKAQ 222
Query: 375 LELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVD 433
L +L+R P ++E+ +N+S + ++++ + LSL+ R G ++ E ++ + D +
Sbjct: 223 RNLKQQLQRNPNEQELANELNVSLSQLHQLLELRRQSLSLNHRVGKAEDTELVDLLEDSE 282
Query: 434 GVENENQRQPALLRLALDDVL-DSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
E + A++R + VL D L +E VI R+GL TL E+ G N+SRE
Sbjct: 283 LQLPEERMSEAMMRQEIFTVLSDVLTEREKDVISLRYGLATNQPYTLEEVGGMFNLSRER 342
Query: 493 VRKHEVKGLMKLKHP 507
VR+ + K + KL+ P
Sbjct: 343 VRQIQSKAMRKLRRP 357
>gi|418019755|ref|ZP_12659178.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Regiella
insecticola R5.15]
gi|347604885|gb|EGY29428.1| RNA polymerase sigma factor, sigma-70 family [Candidatus Regiella
insecticola R5.15]
Length = 615
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 155/280 (55%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ Q+K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 347 IQIEEKTGLTVEQIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 403
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 404 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 458
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E R PT EE+ + +++ ++ R+V+K +K +S+ + G ++
Sbjct: 459 IETINKLNRVARQMLQEKGREPTPEELAEQMSMPEDKIRKVLKIAKEPISMETPIGDDED 518
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ P LR A +VL L P+E+ V+R RFG+D D
Sbjct: 519 SHLG-----DFIEDTTLELPLGSATSESLRSATHEVLAGLTPREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 99/299 (33%), Positives = 166/299 (55%), Gaps = 32/299 (10%)
Query: 226 KLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLR 285
K+ P+++++ K++GR P + AE ++ K E + A+ +L + NLR
Sbjct: 94 KINDPVRMYL-------KEIGRVPL-LTAAEEVELAL----KIEEGDQEAKQRLAEANLR 141
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + K+Y G +F DL Q G GL+ A+++F+ ++ F+ STY +WIR AI R+
Sbjct: 142 LVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRA 198
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P + T +R IQR +LL +L R PT EEI +++S E+ RE+
Sbjct: 199 IADQARTIRIPVHMVETINKLIR--IQR---QLLQDLGREPTPEEIGAEMDLSTEKVREI 253
Query: 405 MKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLK 458
+K ++ +SL + G + + D +E+++ PA LL+ L+DVLD+L
Sbjct: 254 LKIAQEPVSLETPIGEEDDSHLG-----DFIEDQDATSPAEHAAYELLKEQLEDVLDTLT 308
Query: 459 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E V+R RFG+D RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 309 DREENVLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>gi|422650747|ref|ZP_16713548.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
actinidiae str. M302091]
gi|330963831|gb|EGH64091.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv.
actinidiae str. M302091]
Length = 616
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/313 (30%), Positives = 168/313 (53%), Gaps = 28/313 (8%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA- 274
+ +W L + + + +LQ D+ R + L E T + A++K + +G A
Sbjct: 315 DESWTDGLAKGKGKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIGEAK 374
Query: 275 ---ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 375 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 431
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 432 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 486
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 487 GERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVE 541
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 542 SLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 601
Query: 505 KHPTRVDYLRQHM 517
+HPTR ++LR +
Sbjct: 602 RHPTRSEHLRSFL 614
>gi|260548994|ref|ZP_05823216.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624]
gi|424054507|ref|ZP_17792031.1| RNA polymerase sigma factor RpoD [Acinetobacter nosocomialis
Ab22222]
gi|425741402|ref|ZP_18859550.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii WC-487]
gi|260408162|gb|EEX01633.1| RNA polymerase sigma factor sigma-70 [Acinetobacter sp. RUH2624]
gi|407439256|gb|EKF45781.1| RNA polymerase sigma factor RpoD [Acinetobacter nosocomialis
Ab22222]
gi|425492406|gb|EKU58665.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii WC-487]
Length = 628
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 90/273 (32%), Positives = 156/273 (57%), Gaps = 27/273 (9%)
Query: 259 NMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
N+S A++K K + +G A A+ ++++ NLRLV+ + KKY G +F DL Q G
Sbjct: 366 NLSVAEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEG 422
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ +I
Sbjct: 423 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKI 477
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 430
R +LL E+ R PT EE+ + + + + R+V+K +K +S+ + G ++ +
Sbjct: 478 NRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLG--- 534
Query: 431 DVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
D +E++N P L+ A +VL++L +E+ V++ RFG+D D TL E+
Sbjct: 535 --DFIEDQNITSPIDAATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGK 592
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 593 QFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 625
>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 = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 167/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+YS DLV ++ P+L+ + K +Q M + KE+L+ LG+E + E A
Sbjct: 14 NYSADLVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLTKKEKLEHKLGKELSLKEWAN 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N+S A++ + ++ G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 QVNLSEAELDRAIKQGQRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGSLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++++P + ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 131 RGVEKYDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKTQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI Q + + + RE + ++ +SL R G Q+ ++ + + +G
Sbjct: 186 ELSQKLGRSATPAEIAQELELDTAQIREYLNVARQPISLDVRVGDNQDTELSELLEDEGT 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
+N LLR L ++ L P++ VI RFGL+ + +L +I +N+SRE VR+
Sbjct: 246 SPDNYATQELLRQDLLHLMADLTPQQREVIALRFGLEDGKELSLAKIGQRMNLSRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L +L+
Sbjct: 306 LEHQALAQLR 315
>gi|408788126|ref|ZP_11199848.1| RNA polymerase sigma factor RpoD [Rhizobium lupini HPC(L)]
gi|424910891|ref|ZP_18334268.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. viciae USDA 2370]
gi|392846922|gb|EJA99444.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. viciae USDA 2370]
gi|408486030|gb|EKJ94362.1| RNA polymerase sigma factor RpoD [Rhizobium lupini HPC(L)]
Length = 684
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 162/310 (52%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + K+ RE ++ L+ T +S A+ ++ + + R
Sbjct: 386 MKSIANLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARI 445
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 446 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 502
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ +I R ++L E+ R PT EE+ +
Sbjct: 503 TWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEK 557
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 558 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 612
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 613 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 672
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 673 SRSRKLRSFL 682
>gi|400753744|ref|YP_006562112.1| RNA polymerase sigma factor RpoD [Phaeobacter gallaeciensis 2.10]
gi|398652897|gb|AFO86867.1| RNA polymerase sigma factor RpoD [Phaeobacter gallaeciensis 2.10]
Length = 662
Score = 142 bits (358), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|405381958|ref|ZP_11035780.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF142]
gi|397321446|gb|EJJ25862.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF142]
Length = 684
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 418 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 474
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 529
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 530 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 589
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 590 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 644
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 645 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>gi|212638699|ref|YP_002315219.1| RNA polymerase sigma factor RpoD [Anoxybacillus flavithermus WK1]
gi|212560179|gb|ACJ33234.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Anoxybacillus flavithermus WK1]
Length = 372
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 101/325 (31%), Positives = 173/325 (53%), Gaps = 51/325 (15%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 86 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVPLLSAEEEIELA---- 125
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 126 ------KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 176
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 177 EKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 231
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
+L R P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++
Sbjct: 232 QDLGREPSPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQ 286
Query: 439 NQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
+ PA LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE
Sbjct: 287 DATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRER 346
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP+R L+ +
Sbjct: 347 IRQIEAKALRKLRHPSRSKRLKDFL 371
>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 = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 99/283 (34%), Positives = 157/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 99 KEIGRVPL------LTPEEEVELAKRMEKGDEEAKRRLAEANLRLVVSIAKRYV---GRG 149
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P +
Sbjct: 150 MLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 209
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
T VR +QR +LL EL R P+ EEI + +NI+ ++ RE++K ++ +SL + G
Sbjct: 210 TINKLVR--VQR---QLLQELGRDPSPEEIAKEMNITEDKVREILKIAQEPVSLETPIGE 264
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+ R PA LLR LD+VL +L +E V+R RFGLD
Sbjct: 265 EEDSHLG-----DFIEDHEARAPAEEASFTLLREQLDEVLKTLTEREQRVLRLRFGLDDG 319
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 320 RARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 362
>gi|424885360|ref|ZP_18308971.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM2012]
gi|393177122|gb|EJC77163.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM2012]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>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 = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 99/319 (31%), Positives = 168/319 (52%), Gaps = 11/319 (3%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
+S D+V ++ P+L+ + K +Q M + K L ++L REPT E A
Sbjct: 21 FSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALLGEKATLAQELEREPTTEEWASY 80
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
N S A++KK ++ G A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 81 VNKSEAELKKAIDQGTRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 137
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ + R+P I + +I++ + E
Sbjct: 138 GVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPI-----HITEKLNKIKKVQRE 192
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R T EI + +++ P + RE + ++ +SL R G Q+ ++ + + DG+
Sbjct: 193 LSQTLGRNATPTEIAKELDLEPAQIREYLSIARQPISLDVRVGDNQDTELSELLEDDGLT 252
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR L+ +L L P++ V+ RFGL+ + +L ++ LN+SRE VR+
Sbjct: 253 PVNYTTQESLRQDLNLLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRERVRQL 312
Query: 497 EVKGLMKL--KHPTRVDYL 513
E + L +L +H +Y+
Sbjct: 313 EHQALAQLRRRHANFREYI 331
>gi|229525180|ref|ZP_04414585.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis
VL426]
gi|229338761|gb|EEO03778.1| RNA polymerase sigma factor RpoD [Vibrio cholerae bv. albensis
VL426]
Length = 642
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/310 (30%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA---- 274
WL K++ K +V Q+++ R +++ E T++S ++K + +G A
Sbjct: 344 WLDKVLASDKPYVAKVRAQQEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARR 403
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 404 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 460
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 461 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 515
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 516 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 570
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 571 AATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 630
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 631 SRSEVLRSFL 640
>gi|239827752|ref|YP_002950376.1| RNA polymerase sigma factor RpoD [Geobacillus sp. WCH70]
gi|239808045|gb|ACS25110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geobacillus sp.
WCH70]
Length = 374
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 101/325 (31%), Positives = 172/325 (52%), Gaps = 51/325 (15%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 88 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVPLLSAEEEIELA---- 127
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 128 ------KRIEQGDEEAKRRLTEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 178
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 179 EKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 233
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
+L R PT EEI + ++++PE+ RE++K ++ +SL + G + + D +E++
Sbjct: 234 QDLGREPTPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQ 288
Query: 439 NQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREM 492
P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE
Sbjct: 289 EATSPSEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRER 348
Query: 493 VRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP+R L+ +
Sbjct: 349 IRQIEAKALRKLRHPSRSKRLKDFL 373
>gi|15889446|ref|NP_355127.1| RNA polymerase sigma factor RpoD [Agrobacterium fabrum str. C58]
gi|20141718|sp|P33452.2|RPOD_AGRT5 RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A;
AltName: Full=Major vegetative sigma factor
gi|15157308|gb|AAK87912.1| RNA polymerase sigma factor RpoD [Agrobacterium fabrum str. C58]
Length = 684
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 98/310 (31%), Positives = 162/310 (52%), Gaps = 36/310 (11%)
Query: 231 MKVFVQVKEQLQKDLGREPTDV---------ELAEATNMSAAQVKKCLEV-------GRA 274
MK + + K+ RE ++ L+ T +S A+ ++ + + R
Sbjct: 386 MKSITNLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARI 445
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 446 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 502
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ +I R ++L E+ R PT EE+ +
Sbjct: 503 TWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIGREPTPEELAEK 557
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 558 LAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALLPIDAAIQANLR 612
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 613 ETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 672
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 673 SRSRKLRSFL 682
>gi|403713571|ref|ZP_10939671.1| RNA polymerase principal sigma factor HrdB [Kineosphaera limosa
NBRC 100340]
gi|403212335|dbj|GAB94354.1| RNA polymerase principal sigma factor HrdB [Kineosphaera limosa
NBRC 100340]
Length = 633
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 393 GKNAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 449
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 450 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 504
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 505 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 564
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 565 LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 624
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 625 SQVLRDYL 632
>gi|222475070|ref|YP_002563485.1| RNA polymerase sigma factor [Anaplasma marginale str. Florida]
gi|255003048|ref|ZP_05278012.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str. Puerto
Rico]
gi|255004170|ref|ZP_05278971.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str.
Virginia]
gi|222419206|gb|ACM49229.1| RNA polymerase sigma factor (rpoD) [Anaplasma marginale str.
Florida]
Length = 646
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 96/256 (37%), Positives = 144/256 (56%), Gaps = 13/256 (5%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A+++K A+ ++IK NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 397 AKIQKHERTANKAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNIGLMKAVDKF 453
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
+ KR ++ STY +W+R AI R++ + T R+P +++ +I R ++L E+
Sbjct: 454 DYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINRTLRQMLHEI 508
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITDVDGVENENQ 440
R PT EE+ + ++ E+ R+VMK K +SL S G F + I D V+ EN
Sbjct: 509 GREPTLEELSTRLGMNVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPENA 568
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNISREMVRKHEV 498
A LR VL +L PKE ++R RFG+ GKG D TL E+ N++RE +R+ E
Sbjct: 569 AVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVTRERIRQIEA 627
Query: 499 KGLMKLKHPTRVDYLR 514
K L KL+HP+R LR
Sbjct: 628 KALRKLRHPSRARKLR 643
>gi|429211562|ref|ZP_19202727.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. M1]
gi|428156044|gb|EKX02592.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. M1]
Length = 616
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 90/314 (28%), Positives = 173/314 (55%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT-NMSAAQVK---KCLEVGRA 274
T+ W+ +++ + + E+++ D+ R + E+ ++ +++K + + +G A
Sbjct: 314 TDEAWVDSVLKAKPKYAEALERVKDDVIRNQQKLSALESNVDLKVSEIKDVNRAMSIGEA 373
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 486 LGERMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIEVATS 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 ESLKEATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R ++LR +
Sbjct: 601 LRHPSRSEHLRSFL 614
>gi|311031650|ref|ZP_07709740.1| RNA polymerase sigma factor RpoD [Bacillus sp. m3-13]
Length = 374
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 170/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 88 FDLNDLTVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEISLANR 129
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 183
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 184 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 238
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P+ EEI + ++++P++ RE++K ++ +SL + G + + I D D +
Sbjct: 239 EPSPEEIAEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAA 298
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 299 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 358
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 359 KLRHPSRSKRLKDFL 373
>gi|225174152|ref|ZP_03728151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter
alkaliphilus AHT 1]
gi|225169937|gb|EEG78732.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiobacter
alkaliphilus AHT 1]
Length = 372
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 96/285 (33%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++G+ P +D E+A A M A A+ +L + NLRLV+ + KKY
Sbjct: 108 KEIGKIPLLSSDEEIALAKRMEAGD--------EEAKRRLAEANLRLVVSIAKKYV---G 156
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 157 RGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 213
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +L+ EL R P +EI +NIS ER RE++K ++ +SL +
Sbjct: 214 --VHMVETINKLIRVSRQLVQELGREPAPDEIAHVMNISEERVREILKIAQEPVSLETPI 271
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G + + D +E+++ + PA LL+ LDDVL++L P+E V+ RFGL+
Sbjct: 272 GEEDDSHLG-----DFIEDQDVQAPAEAAAFELLKEQLDDVLETLTPREKKVLTLRFGLE 326
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP R L+ ++
Sbjct: 327 DGRSRTLEEVGQVFGVTRERIRQIEAKALRKLRHPMRSKRLKDYL 371
>gi|304322159|ref|YP_003855802.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503]
gi|303301061|gb|ADM10660.1| RNA polymerase sigma factor [Parvularcula bermudensis HTCC2503]
Length = 650
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 151/280 (53%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
+LA+ T ++ ++ ++ R A+ ++I+ NLRLV+ + KKY G +F
Sbjct: 383 QLAQETGLTVKDFRRIVQTVQKGEREARIAKKEMIEANLRLVISIAKKYTN---RGLQFL 439
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 440 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 494
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ +I R ++L E+ R PT EE+ +++ E+ R+VMK +K +SL + G ++
Sbjct: 495 ETINKIVRTSRQILNEIGREPTPEELAAKLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 554
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I +D N LR VL SL P+E V+R RFG+ D
Sbjct: 555 HLGDFIEDKNAILPIDAAIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDH 608
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 609 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 648
>gi|445434350|ref|ZP_21439963.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii OIFC021]
gi|444756332|gb|ELW80877.1| RNA polymerase sigma factor RpoD [Acinetobacter baumannii OIFC021]
Length = 628
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 90/273 (32%), Positives = 156/273 (57%), Gaps = 27/273 (9%)
Query: 259 NMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
N+S A++K K + +G A A+ ++++ NLRLV+ + KKY G +F DL Q G
Sbjct: 366 NLSVAEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEG 422
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ +I
Sbjct: 423 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKI 477
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 430
R +LL E+ R PT EE+ + + + + R+V+K +K +S+ + G ++ +
Sbjct: 478 NRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLG--- 534
Query: 431 DVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
D +E++N P L+ A +VL++L +E+ V++ RFG+D D TL E+
Sbjct: 535 --DFIEDQNITSPIDAATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGK 592
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 593 QFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 625
>gi|333979989|ref|YP_004517934.1| RpoD subfamily RNA polymerase sigma-70 subunit [Desulfotomaculum
kuznetsovii DSM 6115]
gi|333823470|gb|AEG16133.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
kuznetsovii DSM 6115]
Length = 363
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 97/283 (34%), Positives = 157/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 99 KEIGRIPL------LTPEEEIELAKRMEQGDEEAKRRLAEANLRLVVSIAKRYV---GRG 149
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 150 MLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP----- 204
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL EL R PT EEI + + IS E+ RE+MK ++ +SL + G
Sbjct: 205 VHMVETINKLIRVSRQLLQELGREPTPEEIAREMGISEEKVREIMKIAQEPVSLETPIGE 264
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+++ R PA LLR L++VL +L +E V+R RFGLD
Sbjct: 265 EEDSHLG-----DFIEDQDARAPAEEASYTLLREQLEEVLKTLTDREQKVLRLRFGLDDG 319
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 320 RARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 362
>gi|222086540|ref|YP_002545074.1| RNA polymerase sigma factor RpoD [Agrobacterium radiobacter K84]
gi|398381779|ref|ZP_10539885.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. AP16]
gi|221723988|gb|ACM27144.1| RNA polymerase sigma factor protein (sigma-70) [Agrobacterium
radiobacter K84]
gi|397718860|gb|EJK79441.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. AP16]
Length = 687
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 421 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 477
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 478 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 532
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 533 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 592
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 593 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 647
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 648 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 685
>gi|158425267|ref|YP_001526559.1| RNA polymerase sigma factor RpoD [Azorhizobium caulinodans ORS 571]
gi|158332156|dbj|BAF89641.1| sigma-70 [Azorhizobium caulinodans ORS 571]
Length = 690
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 94/279 (33%), Positives = 151/279 (54%), Gaps = 29/279 (10%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T + A+ +K +++ R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 424 LATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLD 480
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 481 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 535
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-- 423
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 536 TINKIVRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSH 595
Query: 424 --EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+FI N + +D N LR VL SL P+E V+R RFG+ D T
Sbjct: 596 LGDFIEDKNAVLPIDAAIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHT 649
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 650 LEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 688
>gi|399992085|ref|YP_006572325.1| RNA polymerase sigma factor RpoD [Phaeobacter gallaeciensis DSM
17395 = CIP 105210]
gi|398656640|gb|AFO90606.1| RNA polymerase sigma factor RpoD [Phaeobacter gallaeciensis DSM
17395 = CIP 105210]
Length = 662
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|399522534|ref|ZP_10763197.1| RNA polymerase sigma factor rpoD [Pseudomonas pseudoalcaligenes
CECT 5344]
gi|399109398|emb|CCH39758.1| RNA polymerase sigma factor rpoD [Pseudomonas pseudoalcaligenes
CECT 5344]
Length = 615
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 166/310 (53%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVGRA---- 274
W L + + + LQ D+ R + +L N++ A++K + +G A
Sbjct: 317 WAANLAKGKAKYAEAIGALQADIQRCQQKLADLEAECNLTLAEIKDINRRMSIGEAKARR 376
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 377 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 433
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 434 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEELGER 488
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L+
Sbjct: 489 MEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVESLK 543
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 544 EATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 603
Query: 508 TRVDYLRQHM 517
TR ++LR +
Sbjct: 604 TRSEHLRSFL 613
>gi|116253144|ref|YP_768982.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv.
viciae 3841]
gi|115257792|emb|CAK08890.1| putative RNA polymerase sigma factor RpoD [Rhizobium leguminosarum
bv. viciae 3841]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|262281266|ref|ZP_06059048.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus
RUH2202]
gi|262257497|gb|EEY76233.1| RNA polymerase sigma factor rpoD [Acinetobacter calcoaceticus
RUH2202]
Length = 627
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 90/273 (32%), Positives = 156/273 (57%), Gaps = 27/273 (9%)
Query: 259 NMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAG 311
N+S A++K K + +G A A+ ++++ NLRLV+ + KKY G +F DL Q G
Sbjct: 365 NLSVAEIKDISKRMAIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEG 421
Query: 312 VKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEI 370
GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + ++ +I
Sbjct: 422 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKI 476
Query: 371 QRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGIT 430
R +LL E+ R PT EE+ + + + + R+V+K +K +S+ + G ++ +
Sbjct: 477 NRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKIAKEPISMETPIGDDEDSHLG--- 533
Query: 431 DVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
D +E++N P L+ A +VL++L +E+ V++ RFG+D D TL E+
Sbjct: 534 --DFIEDQNITSPIDAATSEGLKEATREVLENLTEREAKVLKMRFGIDMPTDHTLEEVGK 591
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 592 QFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 624
>gi|255261823|ref|ZP_05341165.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp.
R2A62]
gi|255104158|gb|EET46832.1| RNA polymerase sigma factor RpoD (Sigma-A) [Thalassiobium sp.
R2A62]
Length = 658
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 409 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 465
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 466 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 520
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 521 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 580
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 581 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 634
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 635 IEAKALRKLKHPSRSRKLRSFL 656
>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 = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 95/279 (34%), Positives = 153/279 (54%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + + G PT E A NM A+ ++ L + R A+ K+++ NLRLV+ + KKY
Sbjct: 167 QFESEHGNYPTKKEWAALVNMPMARFRRRLMLARRAKEKMVQSNLRLVVSIAKKYMN--- 223
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 224 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 283
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R P++EEI + + ++ E+ R + K+++ +SL +
Sbjct: 284 YETI-----SRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 338
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+GLD +T
Sbjct: 339 GKEEDSRLGDFIESDSENPELDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKT 398
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 399 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 437
>gi|395495223|ref|ZP_10426802.1| RNA polymerase sigma factor RpoD [Pseudomonas sp. PAMC 25886]
Length = 616
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 168/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + + Q D+ R + L T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRFQADIVRCQQKLTALQTETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|209696105|ref|YP_002264035.1| RNA polymerase sigma factor RpoD [Aliivibrio salmonicida LFI1238]
gi|208010058|emb|CAQ80381.1| RNA polymerase sigma factor RpoD (sigma-70) [Aliivibrio salmonicida
LFI1238]
Length = 610
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 89/305 (29%), Positives = 167/305 (54%), Gaps = 18/305 (5%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA---- 274
W +++ K +V+ ++ ++D+ R + + + T + +K + +G A
Sbjct: 312 WFNEILASDKPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISRRMSIGEAKARR 371
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 372 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 428
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R P EE+ +
Sbjct: 429 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLPEELAER 483
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+ + ++ R+V+K +K +S+ + G ++ + + + +E + L+ A +D
Sbjct: 484 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATND 543
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R +
Sbjct: 544 VLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEV 603
Query: 513 LRQHM 517
LR +
Sbjct: 604 LRSFL 608
>gi|424871653|ref|ZP_18295315.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. viciae WSM1455]
gi|393167354|gb|EJC67401.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. viciae WSM1455]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>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 = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 85/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+++SP++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMSPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR +
Sbjct: 363 LRDFI 367
>gi|315634867|ref|ZP_07890149.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
segnis ATCC 33393]
gi|315476419|gb|EFU67169.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
segnis ATCC 33393]
Length = 621
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 167/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T WL K + K + + Q + +L + V++ + TN++ Q+++ E
Sbjct: 319 TSDVWLVKALAAGKSWSEKLAQYEDELRQAIAHLVQIEQDTNLTIGQIREIGERISQGEL 378
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 379 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 435
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R T EE
Sbjct: 436 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREATPEE 490
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 491 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATA 545
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 546 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 605
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 606 LRHPSRSETLRSFL 619
>gi|190892699|ref|YP_001979241.1| RNA polymerase sigma factor RpoD [Rhizobium etli CIAT 652]
gi|417107538|ref|ZP_11962550.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli
CNPAF512]
gi|190697978|gb|ACE92063.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CIAT
652]
gi|327189666|gb|EGE56814.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli
CNPAF512]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|189219555|ref|YP_001940196.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Methylacidiphilum infernorum V4]
gi|189186413|gb|ACD83598.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Methylacidiphilum infernorum V4]
Length = 623
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 86/253 (33%), Positives = 145/253 (57%), Gaps = 10/253 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K+ L A++++++ NLRLV+ + KKY G F DL Q G GL+ A+++FE
Sbjct: 370 ELKQWLNEAIKAKSEMVEANLRLVISIAKKYSN---RGLSFLDLIQEGNMGLMKAVEKFE 426
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R + +L+ EL
Sbjct: 427 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLMRVQKQLIQELG 481
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT EEI +S +R R ++K ++ +SL ++ G +++ + EN ++
Sbjct: 482 REPTPEEIADETQMSVDRIRTIIKMAQHPISLQAQVGESEDTTFGDFIEDKAAENPSEMT 541
Query: 443 P-ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LLR + DVL +L +E VI QRFGL RTL E+ ++RE +R+ E K L
Sbjct: 542 GYSLLREKIKDVLGTLTERERTVIEQRFGLLDGYPRTLEEVGKQFRVTRERIRQIEAKAL 601
Query: 502 MKLKHPTRVDYLR 514
K++HPTR+ +L+
Sbjct: 602 RKMRHPTRLRHLK 614
>gi|1710688|sp|P52327.1|RPOD_PSEPU RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-70
gi|762877|dbj|BAA06281.1| principal sigma factor [Pseudomonas putida]
gi|1586519|prf||2204230A sigma factor
Length = 614
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 88/280 (31%), Positives = 156/280 (55%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 346 IDLETETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 402
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 403 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 457
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 458 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 517
Query: 424 EFINGITDVDGVENENQRQPAL------LRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 518 SHLG-----DFIEDSTMQSPIYVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 572
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K KL+HPTR ++LR +
Sbjct: 573 TLEEVGKQFDVTRERIRQIEAKAWRKLRHPTRSEHLRSFL 612
>gi|440227313|ref|YP_007334404.1| RNA polymerase sigma factor RpoD [Rhizobium tropici CIAT 899]
gi|440038824|gb|AGB71858.1| RNA polymerase sigma factor RpoD [Rhizobium tropici CIAT 899]
Length = 686
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 420 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 476
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 477 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 531
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 532 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 591
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 592 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 646
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 647 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 684
>gi|209550278|ref|YP_002282195.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv.
trifolii WSM2304]
gi|424918776|ref|ZP_18342140.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM597]
gi|209536034|gb|ACI55969.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium
leguminosarum bv. trifolii WSM2304]
gi|392854952|gb|EJB07473.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM597]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|1765926|emb|CAA70052.1| RNA polymerase sigma-70 subunit [Rhizobium etli]
Length = 685
Score = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|378775713|ref|YP_005177956.1| RNA polymerase sigma factor RpoD [Pasteurella multocida 36950]
gi|356598261|gb|AET16987.1| RNA polymerase sigma factor RpoD [Pasteurella multocida 36950]
Length = 622
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEM-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|260434101|ref|ZP_05788072.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis
ITI-1157]
gi|260417929|gb|EEX11188.1| RNA polymerase sigma factor RpoD [Silicibacter lacuscaerulensis
ITI-1157]
Length = 662
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|241205658|ref|YP_002976754.1| RNA polymerase sigma factor RpoD [Rhizobium leguminosarum bv.
trifolii WSM1325]
gi|424882577|ref|ZP_18306209.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WU95]
gi|240859548|gb|ACS57215.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhizobium
leguminosarum bv. trifolii WSM1325]
gi|392518940|gb|EIW43672.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WU95]
Length = 685
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|424896164|ref|ZP_18319738.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM2297]
gi|393180391|gb|EJC80430.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium
leguminosarum bv. trifolii WSM2297]
Length = 685
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|374710255|ref|ZP_09714689.1| RNA polymerase sigma factor RpoD [Sporolactobacillus inulinus CASD]
Length = 368
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 107/366 (29%), Positives = 190/366 (51%), Gaps = 55/366 (15%)
Query: 159 LDKRIELRKNEDEKVVTKTRKTDSKDEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSS 218
+D+ E ++ V ++ + DS D+H++ E D + +PP +
Sbjct: 50 MDEFYETLADQGVNVTDESERPDSDDKHKEEE--------------FDLNDLSVPPGV-- 93
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNK 278
K+ P+++++ K++GR V+L A + + K+ + +A+ +
Sbjct: 94 -------KINDPVRMYL-------KEIGR----VDLLSA-DEEISLAKRINDGDESAKRR 134
Query: 279 LIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWI 338
L + NLRLV+ + K+Y G F DL Q G GL+ A+++F+ + F+ STY +WI
Sbjct: 135 LAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLMKAVEKFDYTKGFKFSTYATWWI 191
Query: 339 RHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNIS 397
R AI R++ + T R+P + T +R +QR +L+ +L R PT EEI + + +
Sbjct: 192 RQAITRAIADQARTIRIPVHMVETINKLIR--VQRQQLQ---DLGREPTPEEIGKEMELP 246
Query: 398 PERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALD 451
PE+ RE++K ++ +SL + G + + D +E+++ + P+ LL+ L+
Sbjct: 247 PEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQDAKAPSDAAAYELLKEQLE 301
Query: 452 DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVD 511
DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R
Sbjct: 302 DVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSK 361
Query: 512 YLRQHM 517
L+ +
Sbjct: 362 QLKDFL 367
>gi|346993907|ref|ZP_08861979.1| RNA polymerase sigma factor RpoD [Ruegeria sp. TW15]
Length = 662
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|256390959|ref|YP_003112523.1| RNA polymerase sigma factor [Catenulispora acidiphila DSM 44928]
gi|256357185|gb|ACU70682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora
acidiphila DSM 44928]
Length = 559
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 317 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 373
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 374 FSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPE 428
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 429 ELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 488
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 489 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 548
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 549 SRSQVLRDYL 558
>gi|254476970|ref|ZP_05090356.1| Sigma-70, region 3 family [Ruegeria sp. R11]
gi|214031213|gb|EEB72048.1| Sigma-70, region 3 family [Ruegeria sp. R11]
Length = 661
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 412 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 468
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 469 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 523
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 524 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 583
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 584 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 637
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 638 IEAKALRKLKHPSRSRKLRSFL 659
>gi|86358552|ref|YP_470444.1| RNA polymerase sigma factor RpoD [Rhizobium etli CFN 42]
gi|123738298|sp|Q2K619.1|RPOD_RHIEC RecName: Full=RNA polymerase sigma factor rpoD; AltName:
Full=Sigma-70; Short=Sigma-A
gi|86282654|gb|ABC91717.1| RNA polymerase sigma factor protein (sigma-70) [Rhizobium etli CFN
42]
Length = 685
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 419 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 475
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 476 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 530
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 531 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 590
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 591 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 645
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 646 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 683
>gi|343512082|ref|ZP_08749227.1| RNA polymerase sigma factor RpoD [Vibrio scophthalmi LMG 19158]
gi|343515428|ref|ZP_08752485.1| RNA polymerase sigma factor RpoD [Vibrio sp. N418]
gi|342796433|gb|EGU32116.1| RNA polymerase sigma factor RpoD [Vibrio scophthalmi LMG 19158]
gi|342798466|gb|EGU34079.1| RNA polymerase sigma factor RpoD [Vibrio sp. N418]
Length = 618
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 166/310 (53%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + Q + D+ R +++ E T+++ +K + +G A
Sbjct: 320 WLDEVLASDKPYADKIRQSEDDIRRSILKLKIIEEETSLTVQSIKDISRRMSIGEAKARR 379
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 380 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 436
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 437 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 491
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P LR
Sbjct: 492 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLR 546
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 547 AATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 606
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 607 SRSETLRSFL 616
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 94/280 (33%), Positives = 153/280 (54%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++A AT MS ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 400 DIASATGMSLSEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 456
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 457 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 511
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 512 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 571
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 572 HLGDFIEDKNAIIPVDAAIQSN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 625
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 626 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 665
>gi|15603106|ref|NP_246178.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. Pm70]
gi|12721597|gb|AAK03325.1| RpoD [Pasteurella multocida subsp. multocida str. Pm70]
Length = 622
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|328542886|ref|YP_004302995.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1]
gi|326412632|gb|ADZ69695.1| RNA polymerase sigma factor [Polymorphum gilvum SL003B-26A1]
Length = 666
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/263 (34%), Positives = 144/263 (54%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 416 AMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 472
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 473 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEI 527
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+V+K +K +SL + G ++ +FI N + +D
Sbjct: 528 GREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDA 587
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 588 AIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 641
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 642 QIEAKALRKLKHPSRSRKLRSFL 664
>gi|317493716|ref|ZP_07952133.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium
9_2_54FAA]
gi|365834774|ref|ZP_09376213.1| RNA polymerase sigma factor RpoD [Hafnia alvei ATCC 51873]
gi|316918043|gb|EFV39385.1| RNA polymerase sigma factor RpoD [Enterobacteriaceae bacterium
9_2_54FAA]
gi|364567855|gb|EHM45504.1| RNA polymerase sigma factor RpoD [Hafnia alvei ATCC 51873]
Length = 610
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +++D+ R + ++ E T ++ QVK + +G
Sbjct: 306 NETNTTWFDAALAMAKPWGEKLKDVREDVERSLQKLHQIEEETGLTIEQVKDINRRMSIG 365
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 366 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 422
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 423 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 477
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 478 EELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 536
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 537 -----LRSATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 591
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 592 LRKLRHPSRSEVLRSFL 608
>gi|288574624|ref|ZP_06392981.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio
peptidovorans DSM 11002]
gi|288570365|gb|EFC91922.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Dethiosulfovibrio
peptidovorans DSM 11002]
Length = 381
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 95/272 (34%), Positives = 144/272 (52%), Gaps = 20/272 (7%)
Query: 248 EPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDL 307
+P +VELA+ M + A+++LI+ NLRLV+ + KKY G F DL
Sbjct: 127 QPQEVELAKRVEMGDDE----------AKSQLIEANLRLVVSIAKKYM---GRGMLFLDL 173
Query: 308 CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQV 366
Q G GLI A+++F+ R ++ STY +WIR AI R++ + T R+P + T
Sbjct: 174 IQEGNLGLIRAVEKFDYSRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI---- 229
Query: 367 RGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EF 425
++ RA L+ L R PTDEEI + I P + ++ K ++ +SL S G + E
Sbjct: 230 -NKVMRASRNLVQSLGREPTDEEIAAEMGIEPAKVVQIRKVAQEPISLESPVGEEDDSEL 288
Query: 426 INGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGN 485
+ I D D + ++ LR LDDVL+ L +E V+R RFG D TL ++
Sbjct: 289 GDFIEDKDMISPDDSTSMEFLRDQLDDVLEGLTDREKQVLRLRFGFDDGQCYTLEDVGRR 348
Query: 486 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R LR +M
Sbjct: 349 FGVTRERIRQIEAKALRKLRHPSRSVTLRDYM 380
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 85/245 (34%), Positives = 142/245 (57%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
+ ++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MEMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR M
Sbjct: 363 LRDFM 367
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 168/309 (54%), Gaps = 11/309 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+TDLV +++ P+LS E K +Q +V+E+L LGREP+ E A+A
Sbjct: 21 ATDLVRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEVREELATQLGREPSIEEWAKAA 80
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
N+++A + + G A+ K+++ NLRLV+ V KKY + + DL Q G G+
Sbjct: 81 NINSADLLGAIADGEVAKRKMVEANLRLVVSVAKKYIKRNVD---LLDLIQEGSIGMQRG 137
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+P + +R STY +WIR AI R++ + T R+P I + +I++A+ +L
Sbjct: 138 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPI-----HITEKLNKIKKAQRQL 192
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN 437
L R PT E+ + ++P++ RE ++ ++ LSL R G + + + + G
Sbjct: 193 SQRLGRAPTAGELANELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGASP 252
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGL-DGKGDRTLGEIAGNLNISREMVRKH 496
E+ + L L+ +++ L P++ VI RFGL DG+ TL I LNISRE VR+
Sbjct: 253 EDFVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQA-LTLARIGEILNISRERVRQI 311
Query: 497 EVKGLMKLK 505
E + L KL+
Sbjct: 312 EREALTKLR 320
>gi|423067023|ref|ZP_17055813.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|406711309|gb|EKD06510.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 394
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 89/293 (30%), Positives = 161/293 (54%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q M ++++++L K+L +PT E + +S +++ + + GR
Sbjct: 98 PLLTREEEIIYGKKVQQMMSLLEMRDELTKELDHDPTAAEWSAKAGLSESEMTEIMNRGR 157
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ K+I+ NLRLV+ + KKY + F DL Q G GL +++F+P R ++ STY
Sbjct: 158 RAKQKMIEANLRLVVSIAKKYQK---RNMEFLDLIQEGTLGLERGVEKFDPMRGYKFSTY 214
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ +S T R+P I + +I+R + EL + R T EI +
Sbjct: 215 AYWWIRQAITRAIAQNSRTIRLPI-----HITEKLNKIKRVQRELFQQYGRNATPTEIAK 269
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
+++ P + R+ + AS+ +SL R G Q+ + + + + ++ LLR L D
Sbjct: 270 ALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESASADSYVTQELLRQDLKD 329
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
++ L P++ V+ R+GL+ + +L ++ ++NISRE VR+ E + L L+
Sbjct: 330 LMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLR 382
>gi|395790790|ref|ZP_10470249.1| RNA polymerase sigma factor rpoD [Bartonella alsatica IBS 382]
gi|395409086|gb|EJF75685.1| RNA polymerase sigma factor rpoD [Bartonella alsatica IBS 382]
Length = 670
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 104/319 (32%), Positives = 168/319 (52%), Gaps = 27/319 (8%)
Query: 206 DWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
DW I + + + H W M+ K ++ ++Q +L +E T + +AE + QV
Sbjct: 370 DW----INYIATLSGHGWKEFSMREAKEIQNLRSEIQ-NLAQE-TAISIAEFRRI-VTQV 422
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+K A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 423 QKGERESTIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 479
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ +I R ++L E+ R
Sbjct: 480 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKIVRTSRQILHEIGRE 534
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ +++ E+ R+V+K +K +SL + G + + D +E+ N P
Sbjct: 535 PTPEELSSKLSMPLEKVRKVLKIAKEPISLETPVGDEDDSHLG-----DFIEDRNALLPI 589
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
A LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E
Sbjct: 590 DAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEA 649
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KLKHP+R LR +
Sbjct: 650 KALRKLKHPSRSRKLRSFL 668
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 101/321 (31%), Positives = 174/321 (54%), Gaps = 41/321 (12%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
+ D + +PP + K+ P+++++ K++GR D+ AE A
Sbjct: 88 TFDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEQEIALAE 129
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++++ E AR +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 RIEQGDE---EARKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 183
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 184 YRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 238
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E+ +
Sbjct: 239 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDSEAQS 293
Query: 443 PA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P+ LL+ L+DV+D+L +E V+R RFGLD RTL E+ ++RE +R+
Sbjct: 294 PSDHAAYELLKEQLEDVIDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 353
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R L+ +
Sbjct: 354 EAKALRKLRHPSRSKRLKDFL 374
>gi|384915839|ref|ZP_10016044.1| RNA polymerase sigma factor rpoD [Methylacidiphilum fumariolicum
SolV]
gi|384526701|emb|CCG91915.1| RNA polymerase sigma factor rpoD [Methylacidiphilum fumariolicum
SolV]
Length = 625
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 86/253 (33%), Positives = 145/253 (57%), Gaps = 10/253 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K+ L A++ +++ NLRLV+ + KKY G F DL Q G GL+ A+++FE
Sbjct: 372 ELKQWLNEALKAKSCMVEANLRLVISIAKKYSN---RGLSFLDLIQEGNMGLMKAVEKFE 428
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R + +L+ EL
Sbjct: 429 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLMRVQKQLIQELG 483
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT EEI + +S +R R ++K ++ +SL ++ G +++ + EN ++
Sbjct: 484 REPTPEEIAEETQMSVDRIRAIIKMAQHPISLQAQVGESEDTTFGDFIEDKAAENPSEMT 543
Query: 443 P-ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LLR + DVL +L +E VI QRFGL RTL E+ ++RE +R+ E K L
Sbjct: 544 GYSLLREKIRDVLHTLTERERTVIEQRFGLLDGYPRTLEEVGKQFRVTRERIRQIEAKAL 603
Query: 502 MKLKHPTRVDYLR 514
K++HPTR+ +L+
Sbjct: 604 RKMRHPTRLRHLK 616
>gi|338738969|ref|YP_004675931.1| sigma D (sigma 70) factor of RNA polymerase [Hyphomicrobium sp.
MC1]
gi|337759532|emb|CCB65363.1| sigma D (sigma 70) factor of RNA polymerase [Hyphomicrobium sp.
MC1]
Length = 659
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 112/362 (30%), Positives = 191/362 (52%), Gaps = 44/362 (12%)
Query: 186 HEKIEKLVRE-YSYSTDLVSLDWKKMKIPPVL-------------SSTEHTWLFKLMQPM 231
+ +IE LV + Y+ + L+ L+ + M++ + + TWL ++
Sbjct: 310 NNRIESLVEQLYAINKRLIGLEGRLMRLADSYGVPRQHFIDEYYGNELDQTWLDRVANNG 369
Query: 232 K---VFVQVK----EQLQKDLGREPTD--VELAEATNMSAAQVKKCLEVGRAARNKLIKH 282
K FV+V+ EQ++ ++ + T+ +E+ E + A V+K R A+ ++++
Sbjct: 370 KKWGQFVKVERAQVEQIRAEIHQLATETGLEIPEYRRIVKA-VQKGEREARQAKKEMVEA 428
Query: 283 NLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAI 342
NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI
Sbjct: 429 NLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 485
Query: 343 IRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERY 401
RS+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+
Sbjct: 486 TRSIADQARTIRIP-----VHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 540
Query: 402 REVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP--ALLRLALDD----VLD 455
R+V+K +K +SL + G ++ + D +E+ N P A ++ L D VL
Sbjct: 541 RKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDRNAVLPIEAAIQSNLRDTTTRVLA 595
Query: 456 SLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQ 515
SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 596 SLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRS 655
Query: 516 HM 517
+
Sbjct: 656 FL 657
>gi|152965499|ref|YP_001361283.1| RNA polymerase sigma factor [Kineococcus radiotolerans SRS30216]
gi|151360016|gb|ABS03019.1| RNA polymerase, sigma 70 subunit, RpoD family [Kineococcus
radiotolerans SRS30216]
Length = 502
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 260 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 316
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 317 FSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPE 371
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 372 ELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQ 431
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 432 EQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 491
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 492 SRSQVLRDYL 501
>gi|406707970|ref|YP_006758322.1| RNA polymerase sigma-70 subunit RpoD [alpha proteobacterium HIMB59]
gi|406653746|gb|AFS49145.1| RNA polymerase, sigma 70 subunit, RpoD [alpha proteobacterium
HIMB59]
Length = 684
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 88/249 (35%), Positives = 138/249 (55%), Gaps = 10/249 (4%)
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 442 TANQAKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 498
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P + ++ +I R+ +L+ EL R PT EE
Sbjct: 499 STYATWWIRQAITRSIADQARTIRIPVHM-----IETINKIVRSSRQLILELGREPTPEE 553
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI-NGITDVDGVENENQRQPALLRL 448
+ + + E+ R+V+K +K +SL + G + F+ + I D + V E+ LR
Sbjct: 554 LSARLKMPIEKVRKVLKIAKEPVSLETPIGDDDDSFLGDFIEDKNAVIPEDAVMQLNLRE 613
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
+L +L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 614 TTTKILSTLTPREERVLRMRFGIGMSSDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPI 673
Query: 509 RVDYLRQHM 517
R L+ M
Sbjct: 674 RSKKLKSFM 682
>gi|294678570|ref|YP_003579185.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003]
gi|338819308|sp|D5AQI9.1|RPOD_RHOCB RecName: Full=RNA polymerase sigma factor rpoD; AltName:
Full=Sigma-70
gi|881516|gb|AAA70413.1| RpoD [Rhodobacter capsulatus SB 1003]
gi|294477390|gb|ADE86778.1| RNA polymerase sigma factor RpoD [Rhodobacter capsulatus SB 1003]
Length = 674
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 103/313 (32%), Positives = 168/313 (53%), Gaps = 31/313 (9%)
Query: 222 TWLFKL-MQPMKVFVQVKEQLQ---KDLGREPTDVELAEATNMS-----AAQVKKCLEVG 272
TW+ ++ +P + +V + E+ + +DL E V ++S QV+K +
Sbjct: 374 TWMDRMSAKPARAWVTLFEKSRDKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEA 433
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 434 RQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 490
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 491 YATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIGREPTPEELA 545
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPA 444
+ + + E+ R+VMK +K +SL + G ++ +FI N I +D EN
Sbjct: 546 EKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAIQEN----- 600
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KL
Sbjct: 601 -LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKL 659
Query: 505 KHPTRVDYLRQHM 517
KHP+R LR +
Sbjct: 660 KHPSRSRKLRSFL 672
>gi|83941156|ref|ZP_00953618.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36]
gi|83955715|ref|ZP_00964295.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1]
gi|83840009|gb|EAP79185.1| RNA polymerase sigma factor [Sulfitobacter sp. NAS-14.1]
gi|83846976|gb|EAP84851.1| RNA polymerase sigma factor [Sulfitobacter sp. EE-36]
Length = 660
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 411 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 467
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 468 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 522
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 523 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 582
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 583 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 637 IEAKALRKLKHPSRSRKLRSFL 658
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 96/271 (35%), Positives = 151/271 (55%), Gaps = 9/271 (3%)
Query: 248 EPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDL 307
E D AE MS + ++ L GR A+ K+++ NLRLV+ + KKY G FQDL
Sbjct: 140 EVPDTLWAEEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMN---RGLSFQDL 196
Query: 308 CQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQV 366
Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L T
Sbjct: 197 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETI---- 252
Query: 367 RGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI 426
I++ L EL R PT+EEI + I+ E+ R + K+++ +SL + G ++ +
Sbjct: 253 -SRIKKVTKLLSQELGRKPTEEEIATRMEITIEKLRFIAKSAQLPISLETPIGKEEDSRL 311
Query: 427 NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNL 486
+ DG E++ LLR L+ VL++L +E V++ R+GLD +TL EI
Sbjct: 312 GDFIESDGETPEDRVAKVLLREDLESVLETLTARERDVLKLRYGLDDGRMKTLEEIGQIF 371
Query: 487 NISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
N++RE +R+ E K L KL+HP R L++++
Sbjct: 372 NVTRERIRQIEAKALRKLRHPNRNSVLKEYI 402
>gi|395446767|ref|YP_006387020.1| RNA polymerase sigma factor RpoD [Pseudomonas putida ND6]
gi|388560764|gb|AFK69905.1| RNA polymerase sigma factor RpoD [Pseudomonas putida ND6]
Length = 616
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 157/280 (56%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++L T ++ A++K+ + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 IDLEIETGLTVAEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 404
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 405 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 459
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 519
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A DVL L +E+ V+R RFG+D D
Sbjct: 520 SHLG-----DFIEDSTMQSPIDVATVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDH 574
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 575 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 614
>gi|254511749|ref|ZP_05123816.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11]
gi|221535460|gb|EEE38448.1| Sigma-70, region 3 family [Rhodobacteraceae bacterium KLH11]
Length = 662
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|83951483|ref|ZP_00960215.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM]
gi|83836489|gb|EAP75786.1| RNA polymerase sigma factor [Roseovarius nubinhibens ISM]
Length = 660
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/264 (34%), Positives = 147/264 (55%), Gaps = 24/264 (9%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 410 GQVQKGEQEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 466
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 467 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEI 521
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
R PT EE+ + + + E+ R+VMK +K +SL + G ++ + D +E++N
Sbjct: 522 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLG-----DFIEDKNAV 576
Query: 442 QPALLRLALDD--------VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
P L A+ D VL SL P+E V+R RFG+ D TL E+ +++RE +
Sbjct: 577 LP--LDSAIQDNLKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI 634
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L KLKHP+R LR +
Sbjct: 635 RQIEAKALRKLKHPSRSRKLRSFL 658
>gi|126733203|ref|ZP_01748950.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2]
gi|126716069|gb|EBA12933.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. CCS2]
Length = 660
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 411 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 467
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 468 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 522
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 523 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 582
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 583 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 637 IEAKALRKLKHPSRSRKLRSFL 658
>gi|456352946|dbj|BAM87391.1| sigma D (sigma 70) factor of RNA polymerase [Agromonas
oligotrophica S58]
Length = 703
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL +E +A T + + +K + R A+ ++++ NL
Sbjct: 417 KNFVHYEKDRIKDLRQEVQS--MAALTGLEIGEFRKIVHSVQKGEREARQAKKEMVEANL 474
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 475 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 531
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 532 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 586
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 587 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 640
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 641 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 700
Query: 517 M 517
+
Sbjct: 701 L 701
>gi|254491243|ref|ZP_05104424.1| Sigma-70, non-essential region family [Methylophaga thiooxidans
DMS010]
gi|224463756|gb|EEF80024.1| Sigma-70, non-essential region family [Methylophaga thiooxydans
DMS010]
Length = 610
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 88/263 (33%), Positives = 148/263 (56%), Gaps = 15/263 (5%)
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A MS ++ K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+
Sbjct: 356 ARQMSISEAK-----ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLM 407
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++ ++ R
Sbjct: 408 KAVDKFEYQRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVAR 462
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDG 434
++L E+ R PT +E+ + V + ++ R+V+K SK +S+ + G ++ + + DV+
Sbjct: 463 QMLQEMGREPTPDELAERVEMPEDKVRKVLKISKEPISMETPIGDDEDSHLGDFVEDVNV 522
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
+ + LR A VL+ L +E+ V+R RFG+D D TL E+ +++RE +R
Sbjct: 523 ISPSDSAIIEGLREATQGVLNGLTEREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 582
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KL+HP+R D LR +
Sbjct: 583 QIEAKALRKLRHPSRSDQLRSFL 605
>gi|77463967|ref|YP_353471.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1]
gi|126462810|ref|YP_001043924.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides ATCC
17029]
gi|77388385|gb|ABA79570.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides 2.4.1]
gi|126104474|gb|ABN77152.1| RNA polymerase, sigma 70 subunit, RpoD family [Rhodobacter
sphaeroides ATCC 17029]
Length = 668
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 419 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 475
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 476 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 530
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 531 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 590
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 591 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 644
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 645 IEAKALRKLKHPSRSRKLRSFL 666
>gi|410613855|ref|ZP_11324908.1| RNA polymerase primary sigma factor [Glaciecola psychrophila 170]
gi|410166572|dbj|GAC38797.1| RNA polymerase primary sigma factor [Glaciecola psychrophila 170]
Length = 607
Score = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ T WLFK++ + + + Q++L R + + E T + A +K + +G
Sbjct: 303 NETSTVWLFKILNSSLPYAEEMREHQEELERAISKMNTVEDETGLIIADIKDINRRMSIG 362
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 363 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 419
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 420 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 474
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D ++++ QP
Sbjct: 475 EELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIQDDTITQPLDSA 529
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 530 TGGSLKDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 589
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + L+ +
Sbjct: 590 RKLRHPSRSEQLKSFL 605
>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 = 142 bits (357), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 97/277 (35%), Positives = 153/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A V E A+ L + NLRLV+ + K+Y G
Sbjct: 194 KEIGRYPL-ISLEEETKLAEAIVAGG-EEAEFAKQMLAEANLRLVVSIAKRYS---GRGM 248
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 249 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 308
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 309 INKLIR--VQR---NLLQELGRDPLPEEIGKELHMTPDKVREVLKIAQEPVSLETPIGEE 363
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 364 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 423
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 424 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 460
>gi|30022370|ref|NP_834001.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 14579]
gi|218232261|ref|YP_002369099.1| RNA polymerase sigma factor RpoD [Bacillus cereus B4264]
gi|228923044|ref|ZP_04086337.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
huazhongensis BGSC 4BD1]
gi|228960557|ref|ZP_04122206.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pakistani str. T13001]
gi|229048011|ref|ZP_04193587.1| RNA polymerase sigma factor [Bacillus cereus AH676]
gi|229111765|ref|ZP_04241313.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15]
gi|229129569|ref|ZP_04258539.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4]
gi|229146877|ref|ZP_04275242.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24]
gi|229152492|ref|ZP_04280684.1| RNA polymerase sigma factor [Bacillus cereus m1550]
gi|296504786|ref|YP_003666486.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171]
gi|423582502|ref|ZP_17558613.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD014]
gi|423631016|ref|ZP_17606763.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD154]
gi|423634882|ref|ZP_17610535.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD156]
gi|423640626|ref|ZP_17616244.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD166]
gi|423650158|ref|ZP_17625728.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD169]
gi|423657249|ref|ZP_17632548.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD200]
gi|29897928|gb|AAP11202.1| RNA polymerase sigma factor rpoD [Bacillus cereus ATCC 14579]
gi|218160218|gb|ACK60210.1| RNA polymerase sigma-43 factor [Bacillus cereus B4264]
gi|228631100|gb|EEK87737.1| RNA polymerase sigma factor [Bacillus cereus m1550]
gi|228636705|gb|EEK93170.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST24]
gi|228653886|gb|EEL09754.1| RNA polymerase sigma factor [Bacillus cereus BDRD-Cer4]
gi|228671759|gb|EEL27055.1| RNA polymerase sigma factor [Bacillus cereus Rock1-15]
gi|228723468|gb|EEL74837.1| RNA polymerase sigma factor [Bacillus cereus AH676]
gi|228799157|gb|EEM46125.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pakistani str. T13001]
gi|228836677|gb|EEM82025.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
huazhongensis BGSC 4BD1]
gi|296325838|gb|ADH08766.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis BMB171]
gi|401213381|gb|EJR20122.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD014]
gi|401264383|gb|EJR70495.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD154]
gi|401278868|gb|EJR84798.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD156]
gi|401279687|gb|EJR85609.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD166]
gi|401282576|gb|EJR88475.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD169]
gi|401289992|gb|EJR95696.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD200]
Length = 375
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|425066104|ref|ZP_18469224.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
gallicida P1059]
gi|404382644|gb|EJZ79104.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
gallicida P1059]
Length = 622
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|357039549|ref|ZP_09101342.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
gibsoniae DSM 7213]
gi|355357912|gb|EHG05682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Desulfotomaculum
gibsoniae DSM 7213]
Length = 372
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 99/287 (34%), Positives = 155/287 (54%), Gaps = 35/287 (12%)
Query: 243 KDLGREPT-----DVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQD 297
K++GR P +VELA K+ E A+ L + NLRLV+ + K+Y
Sbjct: 108 KEIGRVPLLTPEREVELA----------KRMEEGDEEAKRLLAEANLRLVVSIAKRYV-- 155
Query: 298 FANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPF 356
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P
Sbjct: 156 -GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIP- 213
Query: 357 GLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHS 416
+++ ++ R +LL EL R P EEI + + IS E+ RE++K ++ +SL +
Sbjct: 214 ----VHMVETINKLIRVSRQLLQELGREPLPEEIAKEMGISEEKVREILKIAQEPVSLET 269
Query: 417 RHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFG 470
G ++ + D +E+ + R PA LLR LDDVL +L +E V+R RFG
Sbjct: 270 PIGEEEDSHLG-----DFIEDHDARAPAEEASFTLLREQLDDVLTTLTDREQKVLRLRFG 324
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
LD RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 325 LDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHPSRSKKLKDYL 371
>gi|227113748|ref|ZP_03827404.1| RNA polymerase sigma factor RpoD [Pectobacterium carotovorum subsp.
brasiliensis PBR1692]
Length = 611
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 307 NETNSTWFAAAVAMGKPWSEKLNDVEEDVTRSLQKLQQIEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>gi|336320563|ref|YP_004600531.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [[Cellvibrio]
gilvus ATCC 13127]
gi|336104144|gb|AEI11963.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [[Cellvibrio]
gilvus ATCC 13127]
Length = 541
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 301 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 357
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 358 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 412
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 413 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 472
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 473 LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 532
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 533 SQVLRDYL 540
>gi|253686949|ref|YP_003016139.1| RNA polymerase sigma-70 subunit RpoD [Pectobacterium carotovorum
subsp. carotovorum PC1]
gi|251753527|gb|ACT11603.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium carotovorum
subsp. carotovorum PC1]
Length = 612
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 308 NETNSTWFAAAVAMGKPWSEKLNDVEEDVTRSLQKLQQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|163942050|ref|YP_001646934.1| RNA polymerase sigma factor RpoD [Bacillus weihenstephanensis
KBAB4]
gi|229013514|ref|ZP_04170648.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048]
gi|229019517|ref|ZP_04176334.1| RNA polymerase sigma factor [Bacillus cereus AH1273]
gi|229025758|ref|ZP_04182158.1| RNA polymerase sigma factor [Bacillus cereus AH1272]
gi|229061987|ref|ZP_04199313.1| RNA polymerase sigma factor [Bacillus cereus AH603]
gi|229135118|ref|ZP_04263920.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196]
gi|229169042|ref|ZP_04296758.1| RNA polymerase sigma factor [Bacillus cereus AH621]
gi|423368345|ref|ZP_17345777.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD142]
gi|423389389|ref|ZP_17366615.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1X1-3]
gi|423417781|ref|ZP_17394870.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3X2-1]
gi|423452403|ref|ZP_17429256.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5X1-1]
gi|423470510|ref|ZP_17447254.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6O-2]
gi|423483877|ref|ZP_17460567.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6X1-2]
gi|423489478|ref|ZP_17466160.1| RNA polymerase sigma factor rpoD [Bacillus cereus BtB2-4]
gi|423495201|ref|ZP_17471845.1| RNA polymerase sigma factor rpoD [Bacillus cereus CER057]
gi|423498005|ref|ZP_17474622.1| RNA polymerase sigma factor rpoD [Bacillus cereus CER074]
gi|423512408|ref|ZP_17488939.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA2-1]
gi|423518994|ref|ZP_17495475.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA2-4]
gi|423521847|ref|ZP_17498320.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA4-10]
gi|423558123|ref|ZP_17534425.1| RNA polymerase sigma factor rpoD [Bacillus cereus MC67]
gi|423591710|ref|ZP_17567741.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD048]
gi|423598389|ref|ZP_17574389.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD078]
gi|423612505|ref|ZP_17588366.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD107]
gi|423660861|ref|ZP_17636030.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM022]
gi|423669878|ref|ZP_17644907.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM034]
gi|423673916|ref|ZP_17648855.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM062]
gi|163864247|gb|ABY45306.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus
weihenstephanensis KBAB4]
gi|228614451|gb|EEK71560.1| RNA polymerase sigma factor [Bacillus cereus AH621]
gi|228648347|gb|EEL04380.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST196]
gi|228717296|gb|EEL68969.1| RNA polymerase sigma factor [Bacillus cereus AH603]
gi|228735541|gb|EEL86136.1| RNA polymerase sigma factor [Bacillus cereus AH1272]
gi|228741773|gb|EEL91956.1| RNA polymerase sigma factor [Bacillus cereus AH1273]
gi|228747751|gb|EEL97620.1| RNA polymerase sigma factor [Bacillus mycoides DSM 2048]
gi|401080944|gb|EJP89225.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD142]
gi|401106952|gb|EJQ14909.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3X2-1]
gi|401140041|gb|EJQ47598.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5X1-1]
gi|401141428|gb|EJQ48983.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6X1-2]
gi|401151294|gb|EJQ58746.1| RNA polymerase sigma factor rpoD [Bacillus cereus CER057]
gi|401160049|gb|EJQ67428.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA2-4]
gi|401161292|gb|EJQ68659.1| RNA polymerase sigma factor rpoD [Bacillus cereus CER074]
gi|401176509|gb|EJQ83704.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA4-10]
gi|401191391|gb|EJQ98413.1| RNA polymerase sigma factor rpoD [Bacillus cereus MC67]
gi|401231843|gb|EJR38345.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD048]
gi|401236659|gb|EJR43116.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD078]
gi|401246094|gb|EJR52446.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD107]
gi|401299005|gb|EJS04605.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM034]
gi|401300902|gb|EJS06491.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM022]
gi|401310282|gb|EJS15607.1| RNA polymerase sigma factor rpoD [Bacillus cereus VDM062]
gi|401641480|gb|EJS59197.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1X1-3]
gi|402431714|gb|EJV63778.1| RNA polymerase sigma factor rpoD [Bacillus cereus BtB2-4]
gi|402436176|gb|EJV68208.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6O-2]
gi|402449379|gb|EJV81216.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuA2-1]
Length = 375
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|84502758|ref|ZP_01000877.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597]
gi|84389153|gb|EAQ01951.1| RNA polymerase sigma factor [Oceanicola batsensis HTCC2597]
Length = 663
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 414 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 470
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 471 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 525
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 526 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 585
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 586 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 639
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 640 IEAKALRKLKHPSRSRKLRSFL 661
>gi|409438436|ref|ZP_11265515.1| RNA polymerase, sigma 70 (sigma D) factor [Rhizobium mesoamericanum
STM3625]
gi|408749987|emb|CCM76688.1| RNA polymerase, sigma 70 (sigma D) factor [Rhizobium mesoamericanum
STM3625]
Length = 683
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 417 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 473
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 474 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 528
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 529 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 588
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 589 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 643
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 644 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 681
>gi|421263986|ref|ZP_15714995.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. P52VAC]
gi|401688853|gb|EJS84396.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. P52VAC]
Length = 622
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|399036896|ref|ZP_10733860.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF122]
gi|398065723|gb|EJL57344.1| RNA polymerase sigma factor, sigma-70 family [Rhizobium sp. CF122]
Length = 684
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 418 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 474
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 475 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIE 529
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 530 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 589
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 590 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 644
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 645 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 682
>gi|149914287|ref|ZP_01902818.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b]
gi|149811806|gb|EDM71639.1| RNA polymerase sigma factor RpoD [Roseobacter sp. AzwK-3b]
Length = 662
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/263 (35%), Positives = 147/263 (55%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
AQV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 412 AQVQKGEKEARLAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 468
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 469 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEI 523
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 524 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNVVLPLDS 583
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
+N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 584 AIQDN------LRETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 637
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 638 QIEAKALRKLKHPSRSRKLRSFL 660
>gi|411116559|ref|ZP_11389046.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
gi|410712662|gb|EKQ70163.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Oscillatoriales cyanobacterium JSC-12]
Length = 327
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 101/310 (32%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+++ D+V ++ P+L+ + K +Q M + KE L K L REPTD ELA
Sbjct: 14 TFTADMVRTYLHEIGRVPMLTHEQEIIYGKQVQQMMALQEKKEALAKKLNREPTDAELAS 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
TN+S ++K + GR A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 74 HTNLSEDELKGIMHRGRRAKQKMIEANLRLVVSIAKKYQK---RNLEFLDLIQEGTMGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++ +
Sbjct: 131 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKVQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R + EI + + + P + RE + ++ +SL R G Q+ + + + DG
Sbjct: 186 ELSQKLGRAASAAEIAEALELEPAQIREFLIMARQPVSLDLRVGDNQDTELQDLLEDDGP 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E LR L+ +L L P++ VI RFGL+ + +L ++ +NISRE VR+
Sbjct: 246 SPEIFMAQESLRQDLETLLADLTPQQREVISLRFGLEDGHELSLAKVGERMNISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LERQALDHLR 315
>gi|375264393|ref|YP_005021836.1| RNA polymerase sigma factor RpoD [Vibrio sp. EJY3]
gi|369839717|gb|AEX20861.1| RNA polymerase sigma factor RpoD [Vibrio sp. EJY3]
Length = 623
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 170/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + + ++ ++++ R T +++ E T++S VK + +G A
Sbjct: 325 WLDEILASDKPYAEKIKRNEEEIRRSITKLKMIEEETSLSVQNVKDISRRMSIGEAKARR 384
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 385 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 441
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 442 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 496
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 497 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 551
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 552 GATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 611
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 612 SRSETLRSFL 621
>gi|296445787|ref|ZP_06887740.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium
OB3b]
gi|296256767|gb|EFH03841.1| RNA polymerase, sigma 70 subunit, RpoD [Methylosinus trichosporium
OB3b]
Length = 669
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T + A+ +K +++ R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 403 LATETGLEIAEFRKIVQMVQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLD 459
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 460 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIE 514
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 515 TINKIVRTSRQMLHEIGREPTPEELSEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSH 574
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P + LR VL SL P+E V+R RFG+ D TL
Sbjct: 575 LG-----DFIEDKNAILPIEAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 629
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 630 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 667
>gi|261250212|ref|ZP_05942788.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891 =
ATCC 33934]
gi|417953296|ref|ZP_12596343.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891 =
ATCC 33934]
gi|260939328|gb|EEX95314.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891 =
ATCC 33934]
gi|342817471|gb|EGU52352.1| RNA polymerase sigma factor RpoD [Vibrio orientalis CIP 102891 =
ATCC 33934]
Length = 618
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 169/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVEL-AEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + + + + D+ R + +++ E T+++ +K + +G A
Sbjct: 320 WLDEILASDKPYAEKVRRSEDDIRRSISKLKIIEEETSLTVQNIKDISRRMSIGEAKARR 379
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 380 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 436
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 437 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 491
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 492 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATAGSLK 546
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
+A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 547 VATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 606
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 607 SRSETLRSFL 616
>gi|206971344|ref|ZP_03232295.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134]
gi|218899458|ref|YP_002447869.1| RNA polymerase sigma factor RpoD [Bacillus cereus G9842]
gi|228902815|ref|ZP_04066960.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222]
gi|228910126|ref|ZP_04073946.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200]
gi|228941457|ref|ZP_04104008.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
berliner ATCC 10792]
gi|228954576|ref|ZP_04116601.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
kurstaki str. T03a001]
gi|228967357|ref|ZP_04128392.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto
str. T04001]
gi|228974388|ref|ZP_04134957.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
thuringiensis str. T01001]
gi|228980981|ref|ZP_04141284.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407]
gi|229071795|ref|ZP_04205010.1| RNA polymerase sigma factor [Bacillus cereus F65185]
gi|229081552|ref|ZP_04214050.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2]
gi|229180570|ref|ZP_04307912.1| RNA polymerase sigma factor [Bacillus cereus 172560W]
gi|229192502|ref|ZP_04319465.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876]
gi|365158918|ref|ZP_09355106.1| RNA polymerase sigma factor rpoD [Bacillus sp. 7_6_55CFAA_CT2]
gi|384188365|ref|YP_005574261.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
chinensis CT-43]
gi|402564243|ref|YP_006606967.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis HD-771]
gi|410676682|ref|YP_006929053.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis Bt407]
gi|423358669|ref|ZP_17336172.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD022]
gi|423385795|ref|ZP_17363051.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1X1-2]
gi|423411909|ref|ZP_17389029.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3O-2]
gi|423426427|ref|ZP_17403458.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3X2-2]
gi|423432305|ref|ZP_17409309.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4O-1]
gi|423437740|ref|ZP_17414721.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4X12-1]
gi|423503020|ref|ZP_17479612.1| RNA polymerase sigma factor rpoD [Bacillus cereus HD73]
gi|423527848|ref|ZP_17504293.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB1-1]
gi|423561238|ref|ZP_17537514.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-A1]
gi|434377459|ref|YP_006612103.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis HD-789]
gi|449091255|ref|YP_007423696.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar
kurstaki str. HD73]
gi|452200757|ref|YP_007480838.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
thuringiensis str. IS5056]
gi|206734116|gb|EDZ51287.1| RNA polymerase sigma-43 factor [Bacillus cereus AH1134]
gi|218541635|gb|ACK94029.1| RNA polymerase sigma-43 factor [Bacillus cereus G9842]
gi|228591079|gb|EEK48935.1| RNA polymerase sigma factor [Bacillus cereus ATCC 10876]
gi|228602994|gb|EEK60473.1| RNA polymerase sigma factor [Bacillus cereus 172560W]
gi|228701757|gb|EEL54245.1| RNA polymerase sigma factor [Bacillus cereus Rock4-2]
gi|228711390|gb|EEL63350.1| RNA polymerase sigma factor [Bacillus cereus F65185]
gi|228778772|gb|EEM27036.1| RNA polymerase sigma factor [Bacillus thuringiensis Bt407]
gi|228785438|gb|EEM33448.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
thuringiensis str. T01001]
gi|228792392|gb|EEM39959.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar sotto
str. T04001]
gi|228805233|gb|EEM51827.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
kurstaki str. T03a001]
gi|228818238|gb|EEM64312.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
berliner ATCC 10792]
gi|228849643|gb|EEM94477.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 200]
gi|228856824|gb|EEN01339.1| RNA polymerase sigma factor [Bacillus thuringiensis IBL 4222]
gi|326942074|gb|AEA17970.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
chinensis CT-43]
gi|363626082|gb|EHL77086.1| RNA polymerase sigma factor rpoD [Bacillus sp. 7_6_55CFAA_CT2]
gi|401084541|gb|EJP92787.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD022]
gi|401103977|gb|EJQ11954.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3O-2]
gi|401111174|gb|EJQ19073.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG3X2-2]
gi|401117061|gb|EJQ24899.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4O-1]
gi|401120895|gb|EJQ28691.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4X12-1]
gi|401201495|gb|EJR08360.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-A1]
gi|401635851|gb|EJS53606.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1X1-2]
gi|401792895|gb|AFQ18934.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis HD-771]
gi|401876016|gb|AFQ28183.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis HD-789]
gi|402451511|gb|EJV83330.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB1-1]
gi|402459241|gb|EJV90978.1| RNA polymerase sigma factor rpoD [Bacillus cereus HD73]
gi|409175811|gb|AFV20116.1| RNA polymerase sigma factor rpoD [Bacillus thuringiensis Bt407]
gi|449025012|gb|AGE80175.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar
kurstaki str. HD73]
gi|452106150|gb|AGG03090.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
thuringiensis str. IS5056]
Length = 375
Score = 141 bits (356), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 101/308 (32%), Positives = 170/308 (55%), Gaps = 9/308 (2%)
Query: 200 TDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATN 259
TD V +++ P+L+ E K +Q + V +KE L++ LG+EPTD E A A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEIHYAKRVQRLVVLENLKESLKQKLGKEPTDSEWAAAAE 67
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
++ A+++ C+ G AA+ K+++ NLRLV+ V KKY + + DL Q G G+ +
Sbjct: 68 LTEAELRNCIAAGDAAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTLGMQRGV 124
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+P + +R STY +WIR AI R++ S T R+P I + +I++A+ +L
Sbjct: 125 EKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRQLA 179
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE 438
E R T E+ Q + ++P++ RE ++ ++ LSL R G + + + + G+ E
Sbjct: 180 QENGRAATIAELAQELELTPKQVREYLERARQPLSLDLRVGDNHDTELGELLEDTGLLPE 239
Query: 439 NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
+ + L+L L+ ++ L P++ V+ RFGL TL +I LNISRE VR+ E
Sbjct: 240 DYAIHSSLQLDLEKLMADLTPQQREVLALRFGLTDGKPLTLAKIGIRLNISRERVRQIER 299
Query: 499 KGLMKLKH 506
+ L KL+
Sbjct: 300 EALSKLRQ 307
>gi|407798078|ref|ZP_11144991.1| RNA polymerase sigma factor RpoD [Oceaniovalibus guishaninsula
JLT2003]
gi|407059915|gb|EKE45838.1| RNA polymerase sigma factor RpoD [Oceaniovalibus guishaninsula
JLT2003]
Length = 660
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 102/314 (32%), Positives = 170/314 (54%), Gaps = 33/314 (10%)
Query: 222 TWLFKLMQP----MKVFVQVK----EQLQKDLGR--EPTDVELAEATNMSAAQVKKCLEV 271
TWL ++ Q + F++ E+L+ D+ + + V+++E + QV+K +
Sbjct: 360 TWLDRMAQQSGRGWQAFIERSSDKIEELRGDMAQVGQYVGVDISEFRRI-VQQVQKGEKE 418
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 419 ARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 475
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 476 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIGREPTPEEL 530
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQP 443
+ + + E+ R+VMK +K +SL + G ++ +FI N + +D EN
Sbjct: 531 AEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQEN---- 586
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L K
Sbjct: 587 --LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 644
Query: 504 LKHPTRVDYLRQHM 517
LKHP+R LR +
Sbjct: 645 LKHPSRSRKLRSFL 658
>gi|212715646|ref|ZP_03323774.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM
16992 = JCM 1194]
gi|212661013|gb|EEB21588.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM
16992 = JCM 1194]
Length = 448
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 87/256 (33%), Positives = 148/256 (57%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K GR A++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 199 ELKWAANDGRRAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 255
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
K+ F+ STY +WIR AI R+M + T RVP +++V ++ R + ++L +L
Sbjct: 256 WKKGFKFSTYATWWIRQAITRAMADQARTIRVPV-----HMVEVINKLSRVQRQMLQDLG 310
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I D D + +
Sbjct: 311 REPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAV 370
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LL+ VL++L P+E+ VI+ R+GL+ +TL +I ++RE +R+ E K +
Sbjct: 371 AFSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 430
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 431 SKLRHPSRSQTLRDFL 446
>gi|156932573|ref|YP_001436489.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii ATCC
BAA-894]
gi|389839627|ref|YP_006341711.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii ES15]
gi|417789808|ref|ZP_12437416.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii E899]
gi|424801030|ref|ZP_18226572.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii 696]
gi|429106160|ref|ZP_19168029.1| RNA polymerase sigma factor RpoD [Cronobacter malonaticus 681]
gi|429111584|ref|ZP_19173354.1| RNA polymerase sigma factor RpoD [Cronobacter malonaticus 507]
gi|449306897|ref|YP_007439253.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii SP291]
gi|156530827|gb|ABU75653.1| hypothetical protein ESA_00355 [Cronobacter sakazakii ATCC BAA-894]
gi|333956007|gb|EGL73702.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii E899]
gi|387850103|gb|AFJ98200.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii ES15]
gi|423236751|emb|CCK08442.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii 696]
gi|426292883|emb|CCJ94142.1| RNA polymerase sigma factor RpoD [Cronobacter malonaticus 681]
gi|426312741|emb|CCJ99467.1| RNA polymerase sigma factor RpoD [Cronobacter malonaticus 507]
gi|449096930|gb|AGE84964.1| RNA polymerase sigma factor RpoD [Cronobacter sakazakii SP291]
Length = 614
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVAEDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|421591237|ref|ZP_16036125.1| RNA polymerase sigma factor RpoD, partial [Rhizobium sp. Pop5]
gi|403703322|gb|EJZ19607.1| RNA polymerase sigma factor RpoD, partial [Rhizobium sp. Pop5]
Length = 463
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/278 (33%), Positives = 152/278 (54%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ ++ + + R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 197 LATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLD 253
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 254 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIE 308
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
+I R ++L E+ R PT EE+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 309 TINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSH 368
Query: 426 INGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E++N P A LR VL SL P+E V+R RFG+ D TL
Sbjct: 369 LG-----DFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTL 423
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 424 EEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 461
>gi|229098765|ref|ZP_04229703.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29]
gi|229104924|ref|ZP_04235581.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28]
gi|229117789|ref|ZP_04247154.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3]
gi|407706820|ref|YP_006830405.1| hypothetical protein MC28_3584 [Bacillus thuringiensis MC28]
gi|423377849|ref|ZP_17355133.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1O-2]
gi|423440957|ref|ZP_17417863.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4X2-1]
gi|423448875|ref|ZP_17425754.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5O-1]
gi|423464022|ref|ZP_17440790.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6O-1]
gi|423533385|ref|ZP_17509803.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB2-9]
gi|423541360|ref|ZP_17517751.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB4-10]
gi|423547596|ref|ZP_17523954.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB5-5]
gi|423615365|ref|ZP_17591199.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD115]
gi|423622619|ref|ZP_17598397.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD148]
gi|228665652|gb|EEL21129.1| RNA polymerase sigma factor [Bacillus cereus Rock1-3]
gi|228678498|gb|EEL32718.1| RNA polymerase sigma factor [Bacillus cereus Rock3-28]
gi|228684609|gb|EEL38549.1| RNA polymerase sigma factor [Bacillus cereus Rock3-29]
gi|401129469|gb|EJQ37152.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5O-1]
gi|401172548|gb|EJQ79769.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB4-10]
gi|401179317|gb|EJQ86490.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB5-5]
gi|401260739|gb|EJR66907.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD148]
gi|401261044|gb|EJR67211.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD115]
gi|401636115|gb|EJS53869.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG1O-2]
gi|402417618|gb|EJV49918.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG4X2-1]
gi|402420289|gb|EJV52560.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6O-1]
gi|402463604|gb|EJV95304.1| RNA polymerase sigma factor rpoD [Bacillus cereus HuB2-9]
gi|407384505|gb|AFU15006.1| RNA polymerase sigma factor [Bacillus thuringiensis MC28]
Length = 375
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|289207448|ref|YP_003459514.1| RNA polymerase sigma-70 subunit RpoD [Thioalkalivibrio sp. K90mix]
gi|288943079|gb|ADC70778.1| RNA polymerase, sigma 70 subunit, RpoD [Thioalkalivibrio sp.
K90mix]
Length = 629
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/289 (31%), Positives = 161/289 (55%), Gaps = 29/289 (10%)
Query: 240 QLQKDLGREPTDVELAEATNMSA-AQVKKCLEVGRA----ARNKLIKHNLRLVLFVIKKY 294
+LQK L ++E + N+S ++ + + +G A A+ ++++ NLRLV+ + KKY
Sbjct: 354 RLQKKLA----EIEHEASLNISEIKEINRRMSIGEAKARRAKKEMVEANLRLVISIAKKY 409
Query: 295 FQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-R 353
G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R
Sbjct: 410 TN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 466
Query: 354 VPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILS 413
+P + ++ ++ R ++L E+ R T EE+ + + + ++ R+V+K SK +S
Sbjct: 467 IPVHM-----IETINKLNRVSRQMLQEMGREATPEELAERMEMPEDKIRKVLKISKEPIS 521
Query: 414 LHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQ 467
+ + G ++ + D +E+E P+ L A ++L +L P+E+ V+R
Sbjct: 522 METPIGDDEDSHLG-----DFIEDEKVASPSDSAARESLSEATREILSTLTPREAKVLRM 576
Query: 468 RFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
RFG+D D TL E+ +++RE +R+ E K L KL+HPTR + LR +
Sbjct: 577 RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRAELLRTY 625
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 91/259 (35%), Positives = 146/259 (56%), Gaps = 20/259 (7%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 130 KRMAEGDEDAKKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYH 186
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 187 KGFKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGRE 241
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA 444
PT EEI +++ ER RE++K S+ +SL + G ++ + D ++++N PA
Sbjct: 242 PTPEEIAAELDMPVERVREILKISQEPVSLETPIGEEEDSHLG-----DFIQDDNVPVPA 296
Query: 445 ------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
LL+ LD+VLD+L +E V+R RFG+D RTL E+ +++RE +R+ E
Sbjct: 297 EAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEA 356
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R LR ++
Sbjct: 357 KALRKLRHPSRSRKLRDYL 375
>gi|229174966|ref|ZP_04302486.1| RNA polymerase sigma factor [Bacillus cereus MM3]
gi|423400859|ref|ZP_17378032.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-2]
gi|423457457|ref|ZP_17434254.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5X2-1]
gi|423478436|ref|ZP_17455151.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6X1-1]
gi|228608634|gb|EEK65936.1| RNA polymerase sigma factor [Bacillus cereus MM3]
gi|401147841|gb|EJQ55334.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG5X2-1]
gi|401653849|gb|EJS71392.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-2]
gi|402428598|gb|EJV60695.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG6X1-1]
Length = 375
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|157148639|ref|YP_001455958.1| RNA polymerase sigma factor RpoD [Citrobacter koseri ATCC BAA-895]
gi|157085844|gb|ABV15522.1| hypothetical protein CKO_04466 [Citrobacter koseri ATCC BAA-895]
Length = 614
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVTEDVQRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|343498224|ref|ZP_08736263.1| RNA polymerase sigma factor RpoD [Vibrio tubiashii ATCC 19109]
gi|418477566|ref|ZP_13046694.1| RNA polymerase sigma factor RpoD [Vibrio tubiashii NCIMB 1337 =
ATCC 19106]
gi|342824665|gb|EGU59200.1| RNA polymerase sigma factor RpoD [Vibrio tubiashii ATCC 19109]
gi|384574831|gb|EIF05290.1| RNA polymerase sigma factor RpoD [Vibrio tubiashii NCIMB 1337 =
ATCC 19106]
Length = 618
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + + + D+ R ++ + E T+++ +K + +G
Sbjct: 314 NESSEAWLDEILSSDKPYAEKIRRSEDDIRRSIAKLKVIEEETSLTVQNIKDISRRMSIG 373
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 374 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 430
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 431 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 485
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 486 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 540
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 541 TAGSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 600
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 601 RKLRHPSRSETLRSFL 616
>gi|239637627|ref|ZP_04678599.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603]
gi|417643250|ref|ZP_12293310.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri VCU121]
gi|445059539|ref|YP_007384943.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri SG1]
gi|239596845|gb|EEQ79370.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri L37603]
gi|330686029|gb|EGG97652.1| RNA polymerase sigma factor RpoD [Staphylococcus epidermidis
VCU121]
gi|443425596|gb|AGC90499.1| RNA polymerase sigma factor RpoD [Staphylococcus warneri SG1]
Length = 367
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 107/334 (32%), Positives = 177/334 (52%), Gaps = 43/334 (12%)
Query: 192 LVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD 251
LV E +S L+ + PP + K+ P+++++ K++GR
Sbjct: 68 LVNEKDHSDTDAKLNPNDLSAPPGV---------KINDPVRMYL-------KEIGR---- 107
Query: 252 VELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQA 310
V+L A ++ K +E G A+++L + NLRLV+ + K+Y G F DL Q
Sbjct: 108 VDLLSA--QEEIELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQE 162
Query: 311 GVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGE 369
G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T +R
Sbjct: 163 GNMGLIKAVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR-- 220
Query: 370 IQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGI 429
+QR +LL +L R P EEI + +++ PE+ RE++K ++ +SL + G + +
Sbjct: 221 VQR---QLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLG-- 275
Query: 430 TDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIA 483
D +E++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+
Sbjct: 276 ---DFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVG 332
Query: 484 GNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R L+ M
Sbjct: 333 KVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 366
>gi|118591038|ref|ZP_01548438.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614]
gi|118436560|gb|EAV43201.1| RNA polymerase sigma factor [Stappia aggregata IAM 12614]
Length = 662
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/263 (34%), Positives = 144/263 (54%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 412 AMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 468
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 469 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEI 523
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+V+K +K +SL + G ++ +FI N + +D
Sbjct: 524 GREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDA 583
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 584 AIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 637
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 638 QIEAKALRKLKHPSRSRKLRSFL 660
>gi|42783418|ref|NP_980665.1| RNA polymerase sigma factor RpoD [Bacillus cereus ATCC 10987]
gi|47567855|ref|ZP_00238563.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241]
gi|217961783|ref|YP_002340353.1| RNA polymerase sigma factor RpoD [Bacillus cereus AH187]
gi|228916924|ref|ZP_04080486.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pulsiensis BGSC 4CC1]
gi|228987542|ref|ZP_04147661.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
tochigiensis BGSC 4Y1]
gi|229141030|ref|ZP_04269573.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26]
gi|229157906|ref|ZP_04285980.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342]
gi|229163237|ref|ZP_04291192.1| RNA polymerase sigma factor [Bacillus cereus R309803]
gi|229198419|ref|ZP_04325125.1| RNA polymerase sigma factor [Bacillus cereus m1293]
gi|301055785|ref|YP_003793996.1| RNA polymerase sigma factor [Bacillus cereus biovar anthracis str.
CI]
gi|375286298|ref|YP_005106737.1| RNA polymerase sigma-43 factor [Bacillus cereus NC7401]
gi|384182113|ref|YP_005567875.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|402555572|ref|YP_006596843.1| RNA polymerase sigma factor RpoD [Bacillus cereus FRI-35]
gi|423354787|ref|ZP_17332412.1| RNA polymerase sigma factor rpoD [Bacillus cereus IS075]
gi|423373827|ref|ZP_17351166.1| RNA polymerase sigma factor rpoD [Bacillus cereus AND1407]
gi|423395408|ref|ZP_17372609.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-1]
gi|423406283|ref|ZP_17383432.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-3]
gi|423549964|ref|ZP_17526291.1| RNA polymerase sigma factor rpoD [Bacillus cereus ISP3191]
gi|423570534|ref|ZP_17546779.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-A12]
gi|423574026|ref|ZP_17550145.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-D12]
gi|423604056|ref|ZP_17579949.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD102]
gi|42739347|gb|AAS43273.1| RNA polymerase sigma-43 factor [Bacillus cereus ATCC 10987]
gi|47555532|gb|EAL13875.1| RNA polymerase sigma factor rpoD [Bacillus cereus G9241]
gi|217066780|gb|ACJ81030.1| RNA polymerase sigma-43 factor [Bacillus cereus AH187]
gi|228585119|gb|EEK43231.1| RNA polymerase sigma factor [Bacillus cereus m1293]
gi|228620300|gb|EEK77171.1| RNA polymerase sigma factor [Bacillus cereus R309803]
gi|228625565|gb|EEK82318.1| RNA polymerase sigma factor [Bacillus cereus ATCC 4342]
gi|228642463|gb|EEK98751.1| RNA polymerase sigma factor [Bacillus cereus BDRD-ST26]
gi|228772274|gb|EEM20721.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
tochigiensis BGSC 4Y1]
gi|228842748|gb|EEM87834.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pulsiensis BGSC 4CC1]
gi|300377954|gb|ADK06858.1| RNA polymerase sigma factor [Bacillus cereus biovar anthracis str.
CI]
gi|324328197|gb|ADY23457.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
finitimus YBT-020]
gi|358354825|dbj|BAL19997.1| RNA polymerase sigma-43 factor [Bacillus cereus NC7401]
gi|401086097|gb|EJP94328.1| RNA polymerase sigma factor rpoD [Bacillus cereus IS075]
gi|401095228|gb|EJQ03288.1| RNA polymerase sigma factor rpoD [Bacillus cereus AND1407]
gi|401189580|gb|EJQ96630.1| RNA polymerase sigma factor rpoD [Bacillus cereus ISP3191]
gi|401203730|gb|EJR10565.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-A12]
gi|401212595|gb|EJR19338.1| RNA polymerase sigma factor rpoD [Bacillus cereus MSX-D12]
gi|401245742|gb|EJR52095.1| RNA polymerase sigma factor rpoD [Bacillus cereus VD102]
gi|401654819|gb|EJS72358.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-1]
gi|401660277|gb|EJS77759.1| RNA polymerase sigma factor rpoD [Bacillus cereus BAG2X1-3]
gi|401796782|gb|AFQ10641.1| RNA polymerase sigma factor RpoD [Bacillus cereus FRI-35]
Length = 375
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|332670669|ref|YP_004453677.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas fimi
ATCC 484]
gi|332339707|gb|AEE46290.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas fimi
ATCC 484]
Length = 538
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 298 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 354
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 355 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 409
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 410 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 469
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 470 LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 529
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 530 SQVLRDYL 537
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 91/259 (35%), Positives = 146/259 (56%), Gaps = 20/259 (7%)
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 136 KRMAEGDEDAKKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYH 192
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 193 KGFKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGRE 247
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA 444
PT EEI +++ ER RE++K S+ +SL + G ++ + D ++++N PA
Sbjct: 248 PTPEEIAAELDMPVERVREILKISQEPVSLETPIGEEEDSHLG-----DFIQDDNVPVPA 302
Query: 445 ------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
LL+ LD+VLD+L +E V+R RFG+D RTL E+ +++RE +R+ E
Sbjct: 303 EAAAQTLLKEQLDEVLDTLTEREQKVLRLRFGMDDGRARTLEEVGKEFDVTRERIRQIEA 362
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R LR ++
Sbjct: 363 KALRKLRHPSRSRKLRDYL 381
>gi|378549210|ref|ZP_09824426.1| hypothetical protein CCH26_03955 [Citricoccus sp. CH26A]
Length = 426
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + F+ S
Sbjct: 186 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFS 242
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 243 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 297
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 298 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 357
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ R+GL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 358 LHSVLDTLAEREAGVVAMRYGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 417
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 418 SQVLRDYL 425
>gi|417854029|ref|ZP_12499357.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. Anand1_goat]
gi|338218661|gb|EGP04418.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. Anand1_goat]
Length = 622
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|254461643|ref|ZP_05075059.1| RNA polymerase sigma-70 factor RpoD [Rhodobacterales bacterium
HTCC2083]
gi|206678232|gb|EDZ42719.1| RNA polymerase sigma-70 factor RpoD [Rhodobacteraceae bacterium
HTCC2083]
Length = 660
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 145/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 411 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 467
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 468 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 522
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 523 REPTPEELAAKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 582
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 583 IQEN------LKETTTRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 637 IEAKALRKLKHPSRSRKLRSFL 658
>gi|383311804|ref|YP_005364614.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. HN06]
gi|386835757|ref|YP_006241077.1| protein RpoD [Pasteurella multocida subsp. multocida str. 3480]
gi|380873076|gb|AFF25443.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
multocida str. HN06]
gi|385202463|gb|AFI47318.1| RpoD [Pasteurella multocida subsp. multocida str. 3480]
Length = 622
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|86137897|ref|ZP_01056473.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193]
gi|85825489|gb|EAQ45688.1| RNA polymerase sigma-70 factor RpoD [Roseobacter sp. MED193]
Length = 663
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 414 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 470
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 471 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 525
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 526 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 585
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 586 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 639
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 640 IEAKALRKLKHPSRSRKLRSFL 661
>gi|84687692|ref|ZP_01015565.1| RNA polymerase sigma factor [Maritimibacter alkaliphilus HTCC2654]
gi|84664275|gb|EAQ10766.1| RNA polymerase sigma factor [Rhodobacterales bacterium HTCC2654]
Length = 670
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/263 (34%), Positives = 147/263 (55%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
+QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 420 SQVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 476
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 477 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEI 531
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 532 GREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDS 591
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 592 AIQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 645
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 646 QIEAKALRKLKHPSRSRKLRSFL 668
>gi|429093626|ref|ZP_19156207.1| RNA polymerase sigma factor RpoD [Cronobacter dublinensis 1210]
gi|426741454|emb|CCJ82320.1| RNA polymerase sigma factor RpoD [Cronobacter dublinensis 1210]
Length = 614
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVAEDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|423693922|ref|ZP_17668442.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens SS101]
gi|388002264|gb|EIK63593.1| RNA polymerase sigma factor RpoD [Pseudomonas fluorescens SS101]
Length = 615
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + E T ++ A++K + +G
Sbjct: 311 NEVDESWSDALAKGKAKYAEAIGRLQPDIIRCQQKLTALETETGLTIAEIKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 483 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 537
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 538 TVESLKEATRDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 597
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 598 RKLRHPTRSEHLRSFL 613
>gi|254488657|ref|ZP_05101862.1| Sigma-70, region 3 family [Roseobacter sp. GAI101]
gi|214045526|gb|EEB86164.1| Sigma-70, region 3 family [Roseobacter sp. GAI101]
Length = 671
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 422 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 478
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+
Sbjct: 479 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLVRTGRQMLHEIG 533
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 534 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 593
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 594 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 647
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 648 IEAKALRKLKHPSRSRKLRSFL 669
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 99/310 (31%), Positives = 165/310 (53%), Gaps = 9/310 (2%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+YSTD V +++ P+L+ E L K +Q + + K++L ++LG + VE ++
Sbjct: 14 AYSTDTVRTYLQEIGRVPLLTHEEEIVLGKQVQCLMALQETKDKLDEELGHDANRVEWSQ 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
A +S ++ L G A+ K+I+ NLRLV+ V KKY + F DL Q G GL
Sbjct: 74 AAGISETELVHQLRHGERAKRKMIEANLRLVVAVAKKYQK---RNLEFLDLIQEGTLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P + ++ STY +WIR AI R++ S T R+P I + +I+R +
Sbjct: 131 RGVEKFDPMKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPI-----HITEKLNKIKREQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
L +L R P+ EI Q ++++PE+ RE + S+ +SL R G Q+ + + + D V
Sbjct: 186 VLAQKLGRSPSVGEIGQELDLTPEQVREYLTMSRQPISLDVRIGDNQDTELQELLEDDTV 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E+ LR + ++L L P++ VI RFGL +L ++ + ISRE VR+
Sbjct: 246 SPEDYTVQQSLRQDIRNMLTELTPQQKEVINLRFGLIDGTQLSLAKVGQRMGISRERVRQ 305
Query: 496 HEVKGLMKLK 505
E + L L+
Sbjct: 306 LEQQALKHLR 315
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 94/279 (33%), Positives = 156/279 (55%), Gaps = 9/279 (3%)
Query: 240 QLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
Q + + G P+ E AE T+M ++ ++ L +GR A+ K+++ NLRLV+ + KKY
Sbjct: 125 QYESEKGHFPSVREWAELTDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMN--- 181
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G FQDL Q G GLI A ++F+ ++ ++ STY +WIR AI R++ S T R+P L
Sbjct: 182 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 241
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T I++ L E R P++EEI + + ++ E+ R + K+++ +SL +
Sbjct: 242 YETI-----SRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPI 296
Query: 419 GVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
G ++ + + D E LLR L+ VL +L P+E V+R R+G+D +T
Sbjct: 297 GKEEDSRLGDFIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKT 356
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L EI +++RE +R+ E K L KL+HP R L++++
Sbjct: 357 LEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYI 395
>gi|218133123|ref|ZP_03461927.1| hypothetical protein BACPEC_00985 [[Bacteroides] pectinophilus ATCC
43243]
gi|217991996|gb|EEC58000.1| RNA polymerase sigma factor RpoD [[Bacteroides] pectinophilus ATCC
43243]
Length = 448
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 91/250 (36%), Positives = 142/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+N+L + NLRLV+ + K+Y G F DL Q G GLI A+D+F+ ++ F+ STY
Sbjct: 211 AKNRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVDKFDFRKGFKFSTYA 267
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R +LL EL R PT EEI +
Sbjct: 268 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLLRVSRQLLQELGREPTPEEIAKE 322
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
++I ER RE+ K S+ +SL + G ++ + D ++++N PA +L+
Sbjct: 323 MDIPVERVREIQKISQEPVSLETPIGEEEDSHLG-----DFIQDDNVPVPAEEAASTILK 377
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L +VL +L +E V+R RFGLD RTL E+ N++RE +R+ E K L KL+HP
Sbjct: 378 EQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGREFNVTRERIRQIEAKALRKLRHP 437
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 438 SRSRKLRDFL 447
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 96/277 (34%), Positives = 154/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 181 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 235
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 236 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 295
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 296 INKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEE 350
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 351 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 410
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 411 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447
>gi|99081981|ref|YP_614135.1| RNA polymerase sigma factor RpoD [Ruegeria sp. TM1040]
gi|99038261|gb|ABF64873.1| RNA polymerase, sigma 38 subunit, RpoS [Ruegeria sp. TM1040]
Length = 664
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 415 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 471
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 472 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 526
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 527 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 586
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 587 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 640
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 641 IEAKALRKLKHPSRSRKLRSFL 662
>gi|425063934|ref|ZP_18467059.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
gallicida X73]
gi|404382488|gb|EJZ78949.1| RNA polymerase sigma factor RpoD [Pasteurella multocida subsp.
gallicida X73]
Length = 622
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/312 (29%), Positives = 170/312 (54%), Gaps = 30/312 (9%)
Query: 222 TWLFKLMQPMKVFVQVKEQLQKDLGREPTD--VELAEATNMSAAQVKKCLE-------VG 272
TWL K + K + + + ++++ R D +E+ TN++ +Q+++ E
Sbjct: 323 TWLVKALSSGKTWSEKLAKHEEEI-RYYIDNILEIERQTNLTVSQIREVCERISAGELKA 381
Query: 273 RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLST 332
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ ST
Sbjct: 382 RRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 438
Query: 333 YGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEII 391
Y +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE+
Sbjct: 439 YATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEELA 493
Query: 392 QGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------AL 445
+ + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 494 ERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATAQS 548
Query: 446 LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+
Sbjct: 549 LKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 608
Query: 506 HPTRVDYLRQHM 517
HP+R + LR +
Sbjct: 609 HPSRSETLRSFL 620
>gi|359457298|ref|ZP_09245861.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 327
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/319 (30%), Positives = 166/319 (52%), Gaps = 18/319 (5%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
S +TD+V ++ P+L+ E K +Q M + +++ +LGREP+ E A
Sbjct: 14 SPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTEMDELGREPSSEEWAA 73
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
N+S +Q++ L G+ A+ K+I+ NLRLV+ V KKY + DL Q G GL
Sbjct: 74 KANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQK---RNLELLDLIQEGTLGLE 130
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKL 375
+++F+P R ++ STY +WIR AI R++ + T R+P I + +I++A+
Sbjct: 131 RGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPI-----HITEKLNKIKKAQR 185
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGV 435
EL +L R T EI + + + P + R+ + ++ +SL R G Q+ + + + DG
Sbjct: 186 ELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLLEDDGQ 245
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E LR ++ +L L P++ V+ RFGL+ + +L ++ L++SRE VR+
Sbjct: 246 SPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQ 305
Query: 496 HEVKGLMKLKHPTRVDYLR 514
E + L DYLR
Sbjct: 306 LERQAL---------DYLR 315
>gi|292486903|ref|YP_003529773.1| RNA polymerase sigma-70 factor RpoD [Erwinia amylovora CFBP1430]
gi|292900702|ref|YP_003540071.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946]
gi|428783832|ref|ZP_19001325.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora
ACW56400]
gi|291200550|emb|CBJ47679.1| RNA polymerase sigma-70 factor [Erwinia amylovora ATCC 49946]
gi|291552320|emb|CBA19364.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora
CFBP1430]
gi|312170973|emb|CBX79232.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora ATCC
BAA-2158]
gi|426277547|gb|EKV55272.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia amylovora
ACW56400]
Length = 614
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFKAALAMNKPWSEKLNDVSEDVNRGLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|260576520|ref|ZP_05844509.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp.
SW2]
gi|259021243|gb|EEW24550.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodobacter sp.
SW2]
Length = 668
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 419 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 475
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 476 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 530
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 531 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 590
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 591 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 644
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 645 IEAKALRKLKHPSRSRKLRSFL 666
>gi|126738765|ref|ZP_01754461.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6]
gi|126719946|gb|EBA16653.1| RNA polymerase sigma factor RpoD [Roseobacter sp. SK209-2-6]
Length = 663
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 414 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 470
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 471 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 525
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 526 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 585
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 586 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 639
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 640 IEAKALRKLKHPSRSRKLRSFL 661
>gi|397163890|ref|ZP_10487348.1| RNA polymerase sigma factor rpoD [Enterobacter radicincitans DSM
16656]
gi|396094445|gb|EJI91997.1| RNA polymerase sigma factor rpoD [Enterobacter radicincitans DSM
16656]
Length = 614
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 171/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + K + + V E++Q+ L + ++ E T ++ QVK +
Sbjct: 310 NETSETWFNAALAMNKPWSEKLHEVTEEVQRSLQKLQ---QIEEETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 538
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 539 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 592
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 AKALRKLRHPSRSEVLRSFL 612
>gi|421378722|ref|ZP_15828801.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607307-6]
gi|421431095|ref|ZP_15880681.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 8b-1]
gi|437141579|ref|ZP_20683263.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607307-2]
gi|437153525|ref|ZP_20690631.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629163]
gi|437808650|ref|ZP_20840355.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 33944]
gi|445346257|ref|ZP_21418688.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 13-1]
gi|445358516|ref|ZP_21422708.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. PT23]
gi|395995057|gb|EJI04122.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607307-6]
gi|396054921|gb|EJI63413.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 8b-1]
gi|435127747|gb|ELN15107.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607307-2]
gi|435141276|gb|ELN28218.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629163]
gi|435300318|gb|ELO76413.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 33944]
gi|444878227|gb|ELY02350.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 13-1]
gi|444886071|gb|ELY09840.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. PT23]
Length = 615
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 172/320 (53%), Gaps = 36/320 (11%)
Query: 217 SSTEHTWLFKLMQPMKVFVQ----VKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW ++ K + + V E++Q+ L + ++ E T ++ QVK +
Sbjct: 311 NETSETWFNAVIAMNKPWSEKLHDVAEEVQRCLQKLR---QIEEETGLTIEQVKDINRRM 367
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 368 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 424
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 425 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 479
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVEN 437
PT EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D
Sbjct: 480 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATT 539
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 540 ES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE 593
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 594 AKALRKLRHPSRSEVLRSFL 613
>gi|384263579|ref|YP_005418768.1| RNA polymerase sigma factor [Rhodospirillum photometricum DSM 122]
gi|378404682|emb|CCG09798.1| RNA polymerase sigma factor [Rhodospirillum photometricum DSM 122]
Length = 695
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 141/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 457 AKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 513
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 514 TWWIRQAITRSIADQARTIRIPV-----HMIETINKLVRTSRQMLHEIGREPTPEELAEK 568
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N QP A LR
Sbjct: 569 LQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAIQPLDAAINANLR 623
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP
Sbjct: 624 ETCTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHP 683
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 684 SRSRKLRSFL 693
>gi|416051968|ref|ZP_11577943.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans serotype e str. SC1083]
gi|347992579|gb|EGY33971.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans serotype e str. SC1083]
Length = 616
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLAQYENQLRQAITNFVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A ++L+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEILEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|110679091|ref|YP_682098.1| RNA polymerase sigma factor RpoD [Roseobacter denitrificans OCh
114]
gi|109455207|gb|ABG31412.1| RNA polymerase sigma-70 factor RpoD [Roseobacter denitrificans OCh
114]
Length = 661
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 412 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 468
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 469 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 523
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 524 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 583
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 584 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 637
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 638 IEAKALRKLKHPSRSRKLRSFL 659
>gi|57239060|ref|YP_180196.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str.
Welgevonden]
gi|58579003|ref|YP_197215.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str.
Welgevonden]
gi|58617062|ref|YP_196261.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str.
Gardel]
gi|57161139|emb|CAH58052.1| RNA polymerase sigma-70 factor [Ehrlichia ruminantium str.
Welgevonden]
gi|58416674|emb|CAI27787.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str.
Gardel]
gi|58417629|emb|CAI26833.1| RNA polymerase sigma factor rpoD [Ehrlichia ruminantium str.
Welgevonden]
Length = 622
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 98/265 (36%), Positives = 148/265 (55%), Gaps = 14/265 (5%)
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
LAE ++ +++K A+ ++IK NLRLV+ + KKY G +F DL Q G
Sbjct: 365 LAEFKSL-VTKIQKHERAATQAKQEMIKANLRLVVSIAKKYSN---RGLQFLDLVQEGNI 420
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GL+ A+D+F+ KR ++ STY +W+R AI R++ + T R+P +++ +I R
Sbjct: 421 GLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMIETVNKINR 475
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEE-FINGITD 431
++L E+ R PT EE+ +NI+ ++ R+VMK K +SL S G F + I D
Sbjct: 476 TLRQMLHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIED 535
Query: 432 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKG--DRTLGEIAGNLNIS 489
V E+ A LR VL +L PKE ++R RFG+ GKG D TL E+ N++
Sbjct: 536 KRAVRPEDAAVLADLREITTKVLSTLTPKEERILRMRFGI-GKGGKDHTLEEVGKLFNVT 594
Query: 490 REMVRKHEVKGLMKLKHPTRVDYLR 514
RE +R+ E K L KL+HP+R LR
Sbjct: 595 RERIRQIEAKALRKLRHPSRARKLR 619
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 95/309 (30%), Positives = 160/309 (51%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V +++ P+L+ + K +Q M + KE L K L REP+ E A+
Sbjct: 15 FTADMVRTYLREIGRVPLLTREQEIVYGKQVQQMMSLIDAKEALAKKLDREPSLPEWADH 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
S +VK+ + G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VQKSETEVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ T R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPI-----HITEKLNKIKKVQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L L R P+ EI + + + P + RE + ++ +SL + G Q+ + + + DG
Sbjct: 187 LAQTLGRSPSPAEIAKELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDDGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E LR L+ +L L P++ V+ RFGL + +L ++ LN+SRE VR+
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 97/277 (35%), Positives = 153/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A V E A+ L + NLRLV+ + K+Y G
Sbjct: 194 KEIGRYPL-ISLEEETKLAEAIVAGGDE-AEFAKQMLAEANLRLVVSIAKRYS---GRGM 248
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 249 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 308
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 309 INKLIR--VQR---NLLQELGRDPLPEEIGKELHMTPDKVREVLKIAQEPVSLETPIGEE 363
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 364 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 423
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 424 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 460
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 107/337 (31%), Positives = 179/337 (53%), Gaps = 38/337 (11%)
Query: 184 DEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQK 243
D+ E +++L++ DL L +PP + K+ P+++++ K
Sbjct: 82 DDEEHLDRLMKPTEDKFDLNDL-----SVPPGI---------KINDPVRMYL-------K 120
Query: 244 DLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
++GR V+L +A ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 121 EIGR----VDLLKAEE--EVRLAKLIEQGDEEAKKRLAEANLRLVVSIAKRYV---GRGM 171
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 172 LFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 231
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR +LL +L R P+ EEI + +++ PE+ RE++K ++ +SL + G
Sbjct: 232 INKLIR--VQR---QLLQDLGREPSPEEIGEEMDLLPEKVREILKIAQEPVSLETPIGEE 286
Query: 422 QEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + I D D + LL+ L+DVLD+L +E V+R RFGLD RTL
Sbjct: 287 DDSHLGDFIEDSDAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLE 346
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 347 EVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 383
>gi|148259873|ref|YP_001234000.1| RNA polymerase sigma factor RpoD [Acidiphilium cryptum JF-5]
gi|326403199|ref|YP_004283280.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301]
gi|338986664|ref|ZP_08633650.1| RNA polymerase sigma factor rpoD [Acidiphilium sp. PM]
gi|146401554|gb|ABQ30081.1| RNA polymerase, sigma 70 subunit, RpoD [Acidiphilium cryptum JF-5]
gi|325050060|dbj|BAJ80398.1| RNA polymerase sigma factor RpoD [Acidiphilium multivorum AIU301]
gi|338206410|gb|EGO94560.1| RNA polymerase sigma factor rpoD [Acidiphilium sp. PM]
Length = 638
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 90/250 (36%), Positives = 141/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 400 AKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 456
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 457 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQMLHEIGREPTPEELAEK 511
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N P A LR
Sbjct: 512 LGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAIIPLDAAVHANLR 566
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A VL SL P+E V+R RFG+ D TL E+ N++RE +R+ E K L KLKHP
Sbjct: 567 EAATRVLSSLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHP 626
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 627 SRSRKLRSFL 636
>gi|392961840|ref|ZP_10327294.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
gi|421055753|ref|ZP_15518715.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392439518|gb|EIW17229.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392453407|gb|EIW30288.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
Length = 371
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 97/285 (34%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P D E+ A M E A+ +L + NLRLV+ + K+Y
Sbjct: 107 KEIGRVPLLTADEEIKLAQRME--------EGDEEAKRRLAEANLRLVVSIAKRYV---G 155
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 156 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 212
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL EL R P EEI + ++IS ER RE+MK ++ +SL +
Sbjct: 213 --VHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPI 270
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G ++ + D +E+++ PA LL+ L++VL++L P+E V+R RFGLD
Sbjct: 271 GEEEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGLD 325
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ + ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 326 DGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 370
>gi|84515379|ref|ZP_01002741.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53]
gi|84510662|gb|EAQ07117.1| RNA polymerase sigma factor [Loktanella vestfoldensis SKA53]
Length = 659
Score = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 410 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 466
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 467 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKLVRTGRQMLHEIG 521
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 522 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 581
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 582 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 635
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 636 IEAKALRKLKHPSRSRKLRSFL 657
>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 = 141 bits (356), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 97/283 (34%), Positives = 156/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T Q+ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 104 KEIGRVPL------LTAEEEIQLAKRMEQGDEEAKRRLAEANLRLVVSIAKRYV---GRG 154
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 155 MLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP----- 209
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
+++ ++ R +LL E R PT EEI + ++IS ER RE+MK ++ +SL + G
Sbjct: 210 VHMVETINKLIRVSRQLLQEKGREPTPEEIAREMDISVERVREIMKIAQEPVSLETPIGE 269
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+++ PA LL+ L++VL++L P+E V+R RFGLD
Sbjct: 270 EEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDG 324
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 325 RARTLEEVGQYFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 367
>gi|372282206|ref|ZP_09518242.1| RNA polymerase sigma factor RpoD [Oceanicola sp. S124]
Length = 657
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 408 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 464
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 465 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 519
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 520 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 579
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 580 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 633
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 634 IEAKALRKLKHPSRSRKLRSFL 655
>gi|221639823|ref|YP_002526085.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides KD131]
gi|332558839|ref|ZP_08413161.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N]
gi|429209214|ref|ZP_19200452.1| RNA polymerase sigma factor RpoD [Rhodobacter sp. AKP1]
gi|221160604|gb|ACM01584.1| RNA polymerase sigma factor [Rhodobacter sphaeroides KD131]
gi|332276551|gb|EGJ21866.1| RNA polymerase sigma factor RpoD [Rhodobacter sphaeroides WS8N]
gi|428187679|gb|EKX56253.1| RNA polymerase sigma factor RpoD [Rhodobacter sp. AKP1]
Length = 668
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 419 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 475
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 476 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 530
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 531 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 590
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 591 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 644
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 645 IEAKALRKLKHPSRSRKLRSFL 666
>gi|395493362|ref|ZP_10424941.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26617]
Length = 675
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 153/280 (54%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+++AT M+ + ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 408 EISQATGMALGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 464
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 465 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 519
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 520 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 579
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 580 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 633
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 634 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 673
>gi|422341839|ref|ZP_16422779.1| RNA polymerase sigma-70 factor family protein [Treponema denticola
F0402]
gi|325473907|gb|EGC77095.1| RNA polymerase sigma-70 factor family protein [Treponema denticola
F0402]
Length = 619
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 117/377 (31%), Positives = 202/377 (53%), Gaps = 21/377 (5%)
Query: 150 QVKRPKRLSLDKRIELRKNEDEKV----VTKTRKT-DSKDEHEKIEKLVREYSYSTDLVS 204
Q R K + KRI + E EK+ + T K D + + E+ EK + SY+ DL
Sbjct: 253 QALRKKMFNSLKRIHIESEEIEKISDRFIEATEKVQDYQHKKERKEKQLGIKSYA-DLRK 311
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE--LAEATNMSA 262
L K++ IP E + ++ Q+ + L + + + D E + E ++++
Sbjct: 312 LG-KRLAIPREREKLEKELNISANEVKDIYTQI-QVLTRKIRKIEYDFEATVDEVIDLTS 369
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++F
Sbjct: 370 -EIKNGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEKF 425
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +L
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQKL 480
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQ 440
R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N+
Sbjct: 481 GREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNR 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
+ LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E KG
Sbjct: 541 TELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKG 600
Query: 501 LMKLKHPTRVDYLRQHM 517
L +L+HP R L+ ++
Sbjct: 601 LRRLRHPKRSRKLKDYL 617
>gi|429090134|ref|ZP_19152866.1| RNA polymerase sigma factor RpoD [Cronobacter universalis NCTC
9529]
gi|426509937|emb|CCK17978.1| RNA polymerase sigma factor RpoD [Cronobacter universalis NCTC
9529]
Length = 614
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVAEDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|410666950|ref|YP_006919321.1| RNA polymerase sigma factor RpoD [Thermacetogenium phaeum DSM
12270]
gi|409104697|gb|AFV10822.1| RNA polymerase sigma factor RpoD [Thermacetogenium phaeum DSM
12270]
Length = 361
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 99/283 (34%), Positives = 158/283 (55%), Gaps = 27/283 (9%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANG 301
K++GR P T ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 97 KEIGRIPL------LTAEEEVELAKRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRG 147
Query: 302 PRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLES 360
F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P +
Sbjct: 148 MLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 207
Query: 361 TSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGV 420
T VR +QR +LL EL R P EEI + ++I ER RE+MK ++ +SL + G
Sbjct: 208 TINKLVR--VQR---QLLQELGRDPMPEEIAKEMDIPVERVREIMKIAQEPVSLETPIGE 262
Query: 421 TQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGK 474
++ + D +E+E+ PA LL+ L++VL++L P+E V+R RFGL+
Sbjct: 263 EEDSHLG-----DFIEDEDALAPAEAASFILLKEQLEEVLETLTPRERDVLRLRFGLEDG 317
Query: 475 GDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ ++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 318 KARTLEEVGQKFKVTRERIRQIEAKALRKLRHPSRSKKLKDYL 360
>gi|384228081|ref|YP_005619816.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Ua
(Uroleucon ambrosiae)]
gi|345539014|gb|AEO07881.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Ua
(Uroleucon ambrosiae)]
Length = 608
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 101/324 (31%), Positives = 175/324 (54%), Gaps = 31/324 (9%)
Query: 210 MKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVK-- 266
+KI PV + +H W + + + + ++Q D+ +E+ + T ++ QVK
Sbjct: 298 LKIFPV-QNIDHVWFIQEQNKNQPWSENLTKVQDDVFISIKKLIEIEKETGLTIEQVKDI 356
Query: 267 -KCLEVG----RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDR 321
K + +G + A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+
Sbjct: 357 NKRMSIGELKAKRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDK 413
Query: 322 FEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFE 380
FE +R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E
Sbjct: 414 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQE 468
Query: 381 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVD 433
+ R PT EE+ + + I ++ R+V+K +K +S+ + G + +FI T +D
Sbjct: 469 IGREPTPEELSEKMFIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDTTLELPLD 528
Query: 434 GVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
+E+ LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +
Sbjct: 529 SATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERI 582
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L KL+HP+R + LR +
Sbjct: 583 RQIEAKALRKLRHPSRSEVLRSFL 606
>gi|336451150|ref|ZP_08621595.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Idiomarina sp. A28L]
gi|336281995|gb|EGN75241.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Idiomarina sp. A28L]
Length = 610
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 173/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W ++ K + + E+ + ++ R + +AE T +S A+VK + +G
Sbjct: 306 NETSMSWFDAVIAKEKKYAEALEEHRDEVTRCSGKLRAIAEETGLSIAKVKDINRRMSIG 365
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 366 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 422
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P
Sbjct: 423 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPQP 477
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T VD +E+
Sbjct: 478 EELAERMAMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLDLPVDAATSES- 536
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
L+ A+ DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 537 -----LQNAVRDVLGGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 591
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + L+ +
Sbjct: 592 LRKLRHPSRSEQLKSFL 608
>gi|270283843|ref|ZP_05965086.2| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
gallicum DSM 20093]
gi|270277549|gb|EFA23403.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
gallicum DSM 20093]
Length = 485
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 90/267 (33%), Positives = 153/267 (57%), Gaps = 13/267 (4%)
Query: 256 EATNMSAA---QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
E+ MS A ++K G+ A++ L++ NLRLV+ + K+Y G F DL Q G
Sbjct: 225 ESEGMSFARKRELKWAANDGKKAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGN 281
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A+++F+ K+ F+ STY +WIR AI R+M + T RVP +++V ++
Sbjct: 282 LGLIRAVEKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVP-----VHMVEVINKLS 336
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGIT 430
R + ++L +L R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I
Sbjct: 337 RVQRQMLQDLGREPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDPEFGDLIE 396
Query: 431 DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISR 490
D D + + +LL+ VL++L P+E+ VI+ R+GL+ +TL +I ++R
Sbjct: 397 DTDAIAPSDAVAFSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTR 456
Query: 491 EMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E +R+ E K + KL+HP+R LR +
Sbjct: 457 ERIRQIESKTMSKLRHPSRSQTLRDFL 483
>gi|421779716|ref|ZP_16216208.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4]
gi|407813426|gb|EKF84208.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4]
Length = 628
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 89/262 (33%), Positives = 149/262 (56%), Gaps = 20/262 (7%)
Query: 265 VKKCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAID 320
V + + +G A A+ +++ NLRLV+ + KKY G +F DL Q G GL+ A+D
Sbjct: 375 VARQMAIGEAKARRAKKDMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVD 431
Query: 321 RFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLF 379
+FE +R ++ STY +WIR AI RS+ + T R+P +++ +I R +LL
Sbjct: 432 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKINRVSRQLLQ 486
Query: 380 ELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGITDVDGV 435
E+ R PT EE+ + +++ + R+V+K +K +S+ + G ++ +FI T +
Sbjct: 487 EMGREPTPEELGERLDMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTISSPI 546
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN LR A +VLD+L +E+ V++ RFG+D D TL E+ +++RE +R+
Sbjct: 547 ENATAEG---LREATREVLDNLTEREAKVLKMRFGIDMPSDHTLEEVGKQFDVTRERIRQ 603
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R ++LR +
Sbjct: 604 IEAKALRKLRHPSRSEHLRSFL 625
>gi|383645191|ref|ZP_09957597.1| RNA polymerase sigma factor RpoD [Sphingomonas elodea ATCC 31461]
Length = 675
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 109/360 (30%), Positives = 183/360 (50%), Gaps = 44/360 (12%)
Query: 188 KIEKLVRE-YSYSTDLVSLDWKKMKIPP-------------VLSSTEHTWLFKLMQPMKV 233
KIE LV + YS++ L +L + +++ V + WL ++ K
Sbjct: 328 KIEYLVDQLYSFNRRLTALGGQMLRLAERHKVSRKDFLDRYVDHELDENWLPSVVGIDKK 387
Query: 234 FVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLR 285
+ E + R T++ E+A+ T M+ + ++ + + R A+ ++++ NLR
Sbjct: 388 WKNFVENESSSVDRIRTEMSEIAQQTGMTLTEFRRIVNMVQKGEREARIAKKEMVEANLR 447
Query: 286 LVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRS 345
LV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS
Sbjct: 448 LVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 504
Query: 346 MTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREV 404
+ + T R+P + ++ ++ R + L E R PT EE+ + +++ E+ R+V
Sbjct: 505 IADQARTIRIPVHM-----IETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKV 559
Query: 405 MKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSL 457
MK +K +SL + G ++ +FI N I VD N L+ + VL SL
Sbjct: 560 MKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASL 613
Query: 458 KPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 614 TPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 673
>gi|422673121|ref|ZP_16732482.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aceris
str. M302273]
gi|330970856|gb|EGH70922.1| RNA polymerase sigma factor RpoD [Pseudomonas syringae pv. aceris
str. M302273]
Length = 616
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L E T + A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIQRCQQKLSALEEETGLKIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D + TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTNHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|269794902|ref|YP_003314357.1| RNA polymerase sigma-70 subunit RpoD [Sanguibacter keddieii DSM
10542]
gi|269097087|gb|ACZ21523.1| RNA polymerase, sigma 70 subunit, RpoD [Sanguibacter keddieii DSM
10542]
Length = 516
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 88/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 276 GRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 332
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 333 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 387
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 388 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 447
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 448 LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 507
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 508 SQVLRDYL 515
>gi|171742642|ref|ZP_02918449.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC
27678]
gi|171278256|gb|EDT45917.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium ATCC
27678]
Length = 461
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 86/256 (33%), Positives = 148/256 (57%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K G+ A++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 212 ELKWAANDGKKAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 268
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
K+ F+ STY +WIR AI R+M + T RVP +++V ++ R + ++L +L
Sbjct: 269 WKKGFKFSTYATWWIRQAITRAMADQARTIRVPV-----HMVEVINKLSRVQRQMLQDLG 323
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I D D + +
Sbjct: 324 REPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAV 383
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LL+ VL++L P+E+ VI+ R+GL+ +TL +I ++RE +R+ E K +
Sbjct: 384 AFSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 443
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 444 SKLRHPSRSQTLRDFL 459
>gi|404253692|ref|ZP_10957660.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26621]
Length = 675
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 153/280 (54%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+++AT M+ + ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 408 EISQATGMALGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 464
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 465 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 519
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 520 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 579
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 580 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 633
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 634 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 673
>gi|393724260|ref|ZP_10344187.1| RNA polymerase sigma factor RpoD [Sphingomonas sp. PAMC 26605]
Length = 676
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 153/280 (54%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+++AT M+ + ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 409 EISQATGMALTEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 465
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 466 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 520
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 521 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 580
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 581 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 634
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 635 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 674
>gi|354599220|ref|ZP_09017237.1| RNA polymerase, sigma 70 subunit, RpoD [Brenneria sp. EniD312]
gi|353677155|gb|EHD23188.1| RNA polymerase, sigma 70 subunit, RpoD [Brenneria sp. EniD312]
Length = 611
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + +++ D+ R + ++ E T ++ QVK + +G
Sbjct: 307 NETNDSWFIAAIAMSKPWSEKLHEVEDDVKRSLQKLHQVEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>gi|343519915|ref|ZP_08756889.1| RNA polymerase sigma factor RpoD [Haemophilus pittmaniae HK 85]
gi|343392214|gb|EGV04785.1| RNA polymerase sigma factor RpoD [Haemophilus pittmaniae HK 85]
Length = 627
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 98/319 (30%), Positives = 174/319 (54%), Gaps = 29/319 (9%)
Query: 215 VLS-STEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA-TNMSAAQVKK-CLEV 271
VLS S+ TWL K ++ K + + + ++ L ++ L E +N+S ++++ C V
Sbjct: 320 VLSHSSNPTWLEKALKSTKSWAKRLPKYEERLRLSIDNLALLEQRSNLSVLEIREICDAV 379
Query: 272 GRA------ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 380 ARGEQKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 436
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R
Sbjct: 437 RGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGRE 491
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
T EE+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 492 ATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPL 546
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L++A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 547 DSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 606
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 607 KALRKLRHPSRSETLRSFL 625
>gi|296112900|ref|YP_003626838.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis RH4]
gi|416155718|ref|ZP_11604011.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 101P30B1]
gi|416217278|ref|ZP_11624227.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 7169]
gi|416222014|ref|ZP_11625978.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 103P14B1]
gi|416227425|ref|ZP_11627183.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 46P47B1]
gi|416239402|ref|ZP_11631952.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC1]
gi|416241802|ref|ZP_11632936.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC7]
gi|416247627|ref|ZP_11635810.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC8]
gi|416250229|ref|ZP_11637238.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis CO72]
gi|416254493|ref|ZP_11638759.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis O35E]
gi|295920594|gb|ADG60945.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BBH18]
gi|326561129|gb|EGE11494.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 7169]
gi|326564438|gb|EGE14665.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 103P14B1]
gi|326564864|gb|EGE15069.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 46P47B1]
gi|326567590|gb|EGE17705.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC1]
gi|326569439|gb|EGE19499.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC8]
gi|326571363|gb|EGE21378.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis BC7]
gi|326575352|gb|EGE25280.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis CO72]
gi|326576561|gb|EGE26468.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis 101P30B1]
gi|326577423|gb|EGE27307.1| RNA polymerase sigma factor 70 [Moraxella catarrhalis O35E]
Length = 626
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 104/333 (31%), Positives = 179/333 (53%), Gaps = 38/333 (11%)
Query: 197 SYSTDLVSLDW--KKMKIPPVLSSTEHTWLFKLMQPMKVFVQVK-----EQLQKDLGREP 249
++ ++ +L+W ++K P + T ++P V +Q K + LQ D+
Sbjct: 317 TFPSNETNLEWLSHRIKGGPAFAET-----LAKIEPEVVALQQKLLAHEQALQMDI---- 367
Query: 250 TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQ 309
D++ A A M+ + K R A+ +++ NLRLV+ + KKY G +F DL Q
Sbjct: 368 RDMK-AVARQMAIGEAK-----ARRAKKDMVEANLRLVISIAKKYTN---RGLQFLDLIQ 418
Query: 310 AGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRG 368
G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 419 EGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETIN 473
Query: 369 EIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----E 424
+I R +LL E+ R PT EE+ + +++ + R+V+K +K +S+ + G ++ +
Sbjct: 474 KINRVSRQLLQEMGREPTPEELGERLDMDEAKVRKVLKIAKEPISMETPIGDDEDSHLGD 533
Query: 425 FINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAG 484
FI T +EN LR A +VLD+L +E+ V++ RFG+D D TL E+
Sbjct: 534 FIEDNTISSPIENATAEG---LREATREVLDNLTEREAKVLKMRFGIDMPSDHTLEEVGK 590
Query: 485 NLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 591 QFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 623
>gi|221310444|ref|ZP_03592291.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. 168]
gi|221314767|ref|ZP_03596572.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. NCIB 3610]
gi|221319690|ref|ZP_03600984.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. JH642]
gi|221323967|ref|ZP_03605261.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. SMY]
gi|255767573|ref|NP_390399.2| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. 168]
gi|296333322|ref|ZP_06875775.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
spizizenii ATCC 6633]
gi|305675173|ref|YP_003866845.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
subsp. spizizenii str. W23]
gi|321312003|ref|YP_004204290.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5]
gi|350266721|ref|YP_004878028.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
spizizenii TU-B-10]
gi|384176143|ref|YP_005557528.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. RO-NN-1]
gi|386759117|ref|YP_006232333.1| RNA polymerase sigma factor RpoD [Bacillus sp. JS]
gi|398311463|ref|ZP_10514937.1| RNA polymerase sigma factor RpoD [Bacillus mojavensis RO-H-1]
gi|418032304|ref|ZP_12670787.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. SC-8]
gi|430758721|ref|YP_007208938.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. BSP1]
gi|443631815|ref|ZP_21115995.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
inaquosorum KCTC 13429]
gi|449095014|ref|YP_007427505.1| RNA polymerase sigma factor [Bacillus subtilis XF-1]
gi|452915616|ref|ZP_21964242.1| RNA polymerase sigma factor rpoD [Bacillus subtilis MB73/2]
gi|251757327|sp|P06224.2|RPOD_BACSU RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-43; AltName: Full=Sigma-A
gi|225185201|emb|CAB14450.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
subsp. subtilis str. 168]
gi|296149520|gb|EFG90416.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
spizizenii ATCC 6633]
gi|305413417|gb|ADM38536.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
subsp. spizizenii str. W23]
gi|320018277|gb|ADV93263.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BSn5]
gi|349595367|gb|AEP91554.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. RO-NN-1]
gi|349599608|gb|AEP87396.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
spizizenii TU-B-10]
gi|351471167|gb|EHA31288.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. SC-8]
gi|384932399|gb|AFI29077.1| RNA polymerase sigma factor RpoD [Bacillus sp. JS]
gi|407959766|dbj|BAM53006.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BEST7613]
gi|407965341|dbj|BAM58580.1| RNA polymerase sigma factor RpoD [Bacillus subtilis BEST7003]
gi|430023241|gb|AGA23847.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp. subtilis
str. BSP1]
gi|443347930|gb|ELS61987.1| RNA polymerase sigma factor RpoD [Bacillus subtilis subsp.
inaquosorum KCTC 13429]
gi|449028929|gb|AGE64168.1| RNA polymerase sigma factor [Bacillus subtilis XF-1]
gi|452115964|gb|EME06360.1| RNA polymerase sigma factor rpoD [Bacillus subtilis MB73/2]
Length = 371
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 99/315 (31%), Positives = 167/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V L A A
Sbjct: 85 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VNLLSAKE-EIAY 123
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+K E ++ +L + NLRLV+ + K+Y G F DL Q G GL+ A+++F+
Sbjct: 124 AQKIEEGDEESKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLMKAVEKFDY 180
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 181 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 235
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
PT EEI + ++++PE+ RE++K ++ +SL + G + + I D + +
Sbjct: 236 EPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAA 295
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 296 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 355
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 356 KLRHPSRSKRLKDFL 370
>gi|170782020|ref|YP_001710352.1| RNA polymerase sigma factor [Clavibacter michiganensis subsp.
sepedonicus]
gi|169156588|emb|CAQ01739.1| putative RNA polymerase sigma factor [Clavibacter michiganensis
subsp. sepedonicus]
Length = 355
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 145/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A++ L+ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + F+ S
Sbjct: 115 GQRAKSHLLGANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGFKFS 171
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 172 TYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPEEL 226
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + +L+
Sbjct: 227 SRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTMLQKQ 286
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L+ +LDSL +E+ VIR RFGL +TL +I ++RE +R+ E K + KL+HP+R
Sbjct: 287 LESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMAKLRHPSR 346
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 347 SQSLRDYL 354
>gi|449107207|ref|ZP_21743864.1| RNA polymerase sigma factor RpoD [Treponema denticola ASLM]
gi|449109569|ref|ZP_21746203.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33520]
gi|449115694|ref|ZP_21752154.1| RNA polymerase sigma factor RpoD [Treponema denticola H-22]
gi|449120247|ref|ZP_21756633.1| RNA polymerase sigma factor RpoD [Treponema denticola H1-T]
gi|449122652|ref|ZP_21758985.1| RNA polymerase sigma factor RpoD [Treponema denticola MYR-T]
gi|451968903|ref|ZP_21922132.1| RNA polymerase sigma factor RpoD [Treponema denticola US-Trep]
gi|448947642|gb|EMB28486.1| RNA polymerase sigma factor RpoD [Treponema denticola MYR-T]
gi|448948391|gb|EMB29228.1| RNA polymerase sigma factor RpoD [Treponema denticola H1-T]
gi|448955180|gb|EMB35947.1| RNA polymerase sigma factor RpoD [Treponema denticola H-22]
gi|448958812|gb|EMB39540.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33520]
gi|448963008|gb|EMB43693.1| RNA polymerase sigma factor RpoD [Treponema denticola ASLM]
gi|451702356|gb|EMD56778.1| RNA polymerase sigma factor RpoD [Treponema denticola US-Trep]
Length = 619
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 117/377 (31%), Positives = 202/377 (53%), Gaps = 21/377 (5%)
Query: 150 QVKRPKRLSLDKRIELRKNEDEKV----VTKTRKT-DSKDEHEKIEKLVREYSYSTDLVS 204
Q R K + KRI + E EK+ + T K D + + E+ EK + SY+ DL
Sbjct: 253 QALRKKMFNSLKRIHIESEEIEKISDRFIEATEKVQDYQHKKERKEKQLGIKSYA-DLRK 311
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE--LAEATNMSA 262
L K++ IP E + ++ Q+ + L + + + D E + E ++++
Sbjct: 312 LG-KRLAIPREREKLEKELNISANEVKDIYTQI-QVLTRKIRKIEYDFEATVDEVIDLTS 369
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++F
Sbjct: 370 -EIKNGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEKF 425
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +L
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQKL 480
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQ 440
R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N+
Sbjct: 481 GREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNR 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
+ LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E KG
Sbjct: 541 TELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKG 600
Query: 501 LMKLKHPTRVDYLRQHM 517
L +L+HP R L+ ++
Sbjct: 601 LRRLRHPKRSRKLKDYL 617
>gi|433444375|ref|ZP_20409294.1| RNA polymerase sigma factor rpoD [Anoxybacillus flavithermus
TNO-09.006]
gi|432001667|gb|ELK22540.1| RNA polymerase sigma factor rpoD [Anoxybacillus flavithermus
TNO-09.006]
Length = 372
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 168/320 (52%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 86 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVPLLSAEEEIELA---- 125
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 126 ------KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 176
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ ++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 177 EKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 231
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVEN 437
+L R P+ EEI + ++++PE+ RE++K ++ +SL + G + + I D D
Sbjct: 232 QDLGREPSPEEIAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSP 291
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 292 SEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 351
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 352 AKALRKLRHPSRSKRLKDFL 371
>gi|88798840|ref|ZP_01114422.1| RNA polymerase sigma factor [Reinekea blandensis MED297]
gi|88778320|gb|EAR09513.1| RNA polymerase sigma factor [Reinekea blandensis MED297]
Length = 614
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 170/309 (55%), Gaps = 19/309 (6%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVGRA 274
TE WL +L++ K + + + +L R + + + T ++ A+VK + +G A
Sbjct: 313 TEDEWLNELLENPK-YADEAFRYEVELRRAQRKLRNIQKNTGITLAEVKDIHRRISIGEA 371
Query: 275 ----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 372 RARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 428
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE
Sbjct: 429 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEE 483
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRL 448
+ + +++ ++ R+V+K SK +SL + G ++ + I D + N LR
Sbjct: 484 LAERMDMPEDKIRKVLKISKEPISLETPIGDDEDSSLGDFIEDNTMILPVNSATSTGLRD 543
Query: 449 ALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPT 508
A +VL L +E+ V+R RFG++ D TL E+ +++RE +R+ E K L KL+HP+
Sbjct: 544 ATTEVLAGLTAREAKVLRMRFGINMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 603
Query: 509 RVDYLRQHM 517
R D+LR +
Sbjct: 604 RSDHLRSFI 612
>gi|19862496|sp|Q04506.2|RPOD_LACLA RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-42
Length = 386
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 96/277 (34%), Positives = 154/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 120 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 174
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 175 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 234
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 235 INKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEE 289
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 290 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 349
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 350 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 386
>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 = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 96/277 (34%), Positives = 154/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 181 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 235
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 236 QFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 295
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 296 INKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEE 350
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 351 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 410
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 411 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447
>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 = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 94/309 (30%), Positives = 161/309 (52%), Gaps = 9/309 (2%)
Query: 198 YSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEA 257
++ D+V ++ P+L+ + K +Q M + KE L + REPT E A
Sbjct: 15 FTADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALIDAKEALAEQQNREPTASEWAAQ 74
Query: 258 TNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLIT 317
++S ++ + + +G+ A+ K+I+ NLRLV+ + KKY + F DL Q G GL
Sbjct: 75 VHLSEDELTRIITLGQRAKRKMIEANLRLVVAIAKKYQK---RNMEFLDLIQEGTLGLER 131
Query: 318 AIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSS-FTRVPFGLESTSIMQVRGEIQRAKLE 376
+++F+P R ++ STY +WIR AI R++ + R+P I + +I++ + E
Sbjct: 132 GVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARAIRLPI-----HITEKLNKIKKTQRE 186
Query: 377 LLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVE 436
L +L R T EI + + P + RE + ++ +SL R G Q+ ++ + + +G
Sbjct: 187 LAQKLGRHATPTEIAVALELEPAQIREYLNIARQPVSLDVRVGDNQDTELSELLEDEGPS 246
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
E+ LR LDD+L L P++ VI RFGL + +L ++ LN+SRE VR+
Sbjct: 247 PEHFTTQESLRQDLDDLLAELTPQQREVITLRFGLQDGNELSLAKVGQRLNLSRERVRQL 306
Query: 497 EVKGLMKLK 505
E + L L+
Sbjct: 307 EHQALAHLR 315
>gi|90422490|ref|YP_530860.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris
BisB18]
gi|90104504|gb|ABD86541.1| sigma 70 (RpoD) [Rhodopseudomonas palustris BisB18]
Length = 702
Score = 141 bits (356), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 454 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 510
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 511 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 565
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 566 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 625
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 626 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 679
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 680 EAKALRKLKHPSRSRKLRSFL 700
>gi|42526854|ref|NP_971952.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35405]
gi|449112083|ref|ZP_21748638.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33521]
gi|449113113|ref|ZP_21749628.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35404]
gi|449126086|ref|ZP_21762380.1| RNA polymerase sigma factor RpoD [Treponema denticola OTK]
gi|41817169|gb|AAS11863.1| RNA polymerase sigma-70 factor family protein [Treponema denticola
ATCC 35405]
gi|448938800|gb|EMB19727.1| RNA polymerase sigma factor RpoD [Treponema denticola OTK]
gi|448956364|gb|EMB37125.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33521]
gi|448960693|gb|EMB41402.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35404]
Length = 619
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 117/377 (31%), Positives = 202/377 (53%), Gaps = 21/377 (5%)
Query: 150 QVKRPKRLSLDKRIELRKNEDEKV----VTKTRKT-DSKDEHEKIEKLVREYSYSTDLVS 204
Q R K + KRI + E EK+ + T K D + + E+ EK + SY+ DL
Sbjct: 253 QALRKKMFNSLKRIHIESEEIEKISDRFIEATEKVQDYQHKKERKEKQLGIKSYA-DLRK 311
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE--LAEATNMSA 262
L K++ IP E + ++ Q+ + L + + + D E + E ++++
Sbjct: 312 LG-KRLAIPREREKLEKELNISANEVKDIYTQI-QVLTRKIRKIEYDFEATVDEVIDLTS 369
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++F
Sbjct: 370 -EIKNGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEKF 425
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +L
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQKL 480
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQ 440
R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N+
Sbjct: 481 GREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNR 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
+ LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E KG
Sbjct: 541 TELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKG 600
Query: 501 LMKLKHPTRVDYLRQHM 517
L +L+HP R L+ ++
Sbjct: 601 LRRLRHPKRSRKLKDYL 617
>gi|311278024|ref|YP_003940255.1| RNA polymerase sigma-70 subunit RpoD [Enterobacter cloacae SCF1]
gi|308747219|gb|ADO46971.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter cloacae SCF1]
Length = 614
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVTEDVQRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|296104731|ref|YP_003614877.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae
ATCC 13047]
gi|392980728|ref|YP_006479316.1| RNA polymerase sigma factor RpoD [Enterobacter cloacae subsp.
dissolvens SDM]
gi|295059190|gb|ADF63928.1| RNA polymerase sigma-70 factor [Enterobacter cloacae subsp. cloacae
ATCC 13047]
gi|392326661|gb|AFM61614.1| RNA polymerase sigma factor RpoD [Enterobacter cloacae subsp.
dissolvens SDM]
Length = 615
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 311 NETSETWFNAAIAMNKPWSEKLHDVKEDVHRGLQKLQQIEEETGLTIEQVKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 541
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 542 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 596
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 597 LRKLRHPSRSEVLRSFL 613
>gi|407773435|ref|ZP_11120736.1| RNA polymerase sigma factor RpoD [Thalassospira profundimaris
WP0211]
gi|407283899|gb|EKF09427.1| RNA polymerase sigma factor RpoD [Thalassospira profundimaris
WP0211]
Length = 693
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 92/255 (36%), Positives = 144/255 (56%), Gaps = 21/255 (8%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GRA + ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 451 EAGRA-KKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 506
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT E
Sbjct: 507 FSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQMLHEIGREPTPE 561
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP----- 443
E+ + + + E+ R+V+K +K +SL + G ++ + D +E++N QP
Sbjct: 562 ELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAVQPLDAAI 616
Query: 444 -ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
A LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L
Sbjct: 617 QANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALR 676
Query: 503 KLKHPTRVDYLRQHM 517
KLKHP+R LR +
Sbjct: 677 KLKHPSRSRKLRSFL 691
>gi|402776782|ref|YP_006630726.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
QB928]
gi|402481962|gb|AFQ58471.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
QB928]
Length = 400
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 97/295 (32%), Positives = 161/295 (54%), Gaps = 22/295 (7%)
Query: 225 FKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNL 284
F L P+++++ K++GR V L A A +K E ++ +L + NL
Sbjct: 125 FDLNDPVRMYL-------KEIGR----VNLLSAKE-EIAYAQKIEEGDEESKRRLAEANL 172
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + K+Y G F DL Q G GL+ A+++F+ ++ ++ STY +WIR AI R
Sbjct: 173 RLVVSIAKRYV---GRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITR 229
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
++ + T R+P + T +R +QR +LL +L R PT EEI + ++++PE+ RE
Sbjct: 230 AIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGREPTPEEIAEDMDLTPEKVRE 284
Query: 404 VMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKES 462
++K ++ +SL + G + + I D + + LL+ L+DVLD+L +E
Sbjct: 285 ILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDREE 344
Query: 463 LVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 345 NVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 399
>gi|229086862|ref|ZP_04219022.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44]
gi|228696437|gb|EEL49262.1| RNA polymerase sigma factor [Bacillus cereus Rock3-44]
Length = 373
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>gi|304391338|ref|ZP_07373282.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130]
gi|303296694|gb|EFL91050.1| RNA polymerase sigma factor RpoD [Ahrensia sp. R2A130]
Length = 692
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 143/262 (54%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 443 QVQKGERESRIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 499
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 500 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKIVRTSRQMLHEIG 554
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + E+ R+V+K +K +SL + G ++ +FI N I +D
Sbjct: 555 REPTPEELSTKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAA 614
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 615 IQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 668
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 669 IEAKALRKLKHPSRSRKLRSFL 690
>gi|229031941|ref|ZP_04187928.1| RNA polymerase sigma factor [Bacillus cereus AH1271]
gi|228729405|gb|EEL80395.1| RNA polymerase sigma factor [Bacillus cereus AH1271]
Length = 375
Score = 141 bits (355), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 172/320 (53%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 89 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 IEDGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 184
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 185 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 239
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 240 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 294
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 295 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 354
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 355 AKALRKLRHPSRSKRLKDFL 374
>gi|374851086|dbj|BAL54056.1| RNA polymerase primary sigma factor [uncultured gamma
proteobacterium]
Length = 600
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 90/278 (32%), Positives = 155/278 (55%), Gaps = 27/278 (9%)
Query: 254 LAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
+ +A +S Q+K + +G A A+ ++I+ NLRLV+ + KKY G +F D
Sbjct: 334 IEQANYLSIDQIKDINRRVSIGEAKARRAKKEMIEANLRLVISIAKKYTN---RGLQFLD 390
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 391 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIE 445
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEF 425
++ R ++L E+ R PT EE+ + +++ ++ R+V+K +K +S+ + G ++
Sbjct: 446 TINKLNRVSRQMLQEMGREPTPEELARRMDMPEDKVRKVLKIAKEPISMETPIGDDEDSH 505
Query: 426 INGITDVDGVENENQRQPAL------LRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTL 479
+ D +E+ P LR A+ +VL SL +E+ V+R RFG+D D TL
Sbjct: 506 LG-----DFIEDSKAMSPVEAATIEGLREAMQNVLSSLTAREAKVLRMRFGIDMNTDHTL 560
Query: 480 GEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 561 EEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 598
>gi|259416365|ref|ZP_05740285.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B]
gi|259347804|gb|EEW59581.1| RNA polymerase sigma factor RpoD [Silicibacter sp. TrichCH4B]
Length = 664
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 415 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 471
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 472 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 526
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 527 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 586
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 587 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 640
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 641 IEAKALRKLKHPSRSRKLRSFL 662
>gi|153801472|ref|ZP_01956058.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3]
gi|124122963|gb|EAY41706.1| RNA polymerase sigma factor RpoD [Vibrio cholerae MZO-3]
Length = 625
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 96/311 (30%), Positives = 172/311 (55%), Gaps = 30/311 (9%)
Query: 223 WLFKLMQPMKVFV-QVKEQLQKDLGREPTDVELAEA-TNMSAAQVKKC---LEVGRA--- 274
WL K++ K + +V+EQ ++++ R +++ E T++S ++K + +G A
Sbjct: 327 WLDKVLASDKPYAAKVREQ-EEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKAR 385
Query: 275 -ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 386 RAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 442
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 443 ATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAE 497
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALL 446
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L
Sbjct: 498 RMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSL 552
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
+ A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 612
Query: 507 PTRVDYLRQHM 517
P+R + LR +
Sbjct: 613 PSRSEVLRSFL 623
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 94/280 (33%), Positives = 152/280 (54%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++A AT MS + ++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 400 DIASATGMSLGEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFL 456
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 457 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 511
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R + L E R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 512 ETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDS 571
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 572 HLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTDH 625
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 626 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 665
>gi|18202317|sp|P58290.1|RPOD_LACLC RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-42
Length = 364
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 96/277 (34%), Positives = 154/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 98 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 152
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 153 QFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 212
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 213 INKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEE 267
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 268 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 327
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 328 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 364
>gi|402300277|ref|ZP_10819798.1| RNA polymerase sigma factor RpoD [Bacillus alcalophilus ATCC 27647]
gi|401724574|gb|EJS97923.1| RNA polymerase sigma factor RpoD [Bacillus alcalophilus ATCC 27647]
Length = 372
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 167/320 (52%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEATN 259
D + +PP + K+ P+++++ K++GR P ++ELA
Sbjct: 86 FDLNDLSVPPGI---------KINDPVRMYL-------KEIGRVPLLSADEEIELA---- 125
Query: 260 MSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAI 319
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+
Sbjct: 126 ------KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAV 176
Query: 320 DRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELL 378
++F+ + F+ STY +WIR AI R++ + T R+P + T +R +QR +LL
Sbjct: 177 EKFDYDKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLL 231
Query: 379 FELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVEN 437
+ R PT EE+ + + ++PE+ RE++K ++ +SL + G + + I D D +
Sbjct: 232 QDFGREPTPEEVAEEMELTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAP 291
Query: 438 ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 292 SDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 351
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 352 AKALRKLRHPSRSKRLKDFL 371
>gi|398822564|ref|ZP_10580943.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
YR681]
gi|398226795|gb|EJN13038.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
YR681]
Length = 717
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 469 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 525
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 526 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 580
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 581 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 640
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 641 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 694
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 695 EAKALRKLKHPSRSRKLRSFL 715
>gi|421059039|ref|ZP_15521671.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
gi|421067092|ref|ZP_15528606.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|421072461|ref|ZP_15533570.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392445661|gb|EIW22972.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392450830|gb|EIW27839.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|392459720|gb|EIW36105.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
Length = 377
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 97/285 (34%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P D E+ A M E A+ +L + NLRLV+ + K+Y
Sbjct: 113 KEIGRVPLLTADEEIKLAQRME--------EGDEEAKRRLAEANLRLVVSIAKRYV---G 161
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 162 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 218
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL EL R P EEI + ++IS ER RE+MK ++ +SL +
Sbjct: 219 --VHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPI 276
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G ++ + D +E+++ PA LL+ L++VL++L P+E V+R RFGLD
Sbjct: 277 GEEEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGLD 331
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ + ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 332 DGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 376
>gi|307944279|ref|ZP_07659620.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4]
gi|307772625|gb|EFO31845.1| RNA polymerase sigma factor RpoD [Roseibium sp. TrichSKD4]
Length = 669
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 91/262 (34%), Positives = 145/262 (55%), Gaps = 20/262 (7%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 419 AMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 475
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 476 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLHEI 530
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQR 441
R PT EE+ + + + E+ R+V+K +K +SL + G ++ + D +E++N
Sbjct: 531 GREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAV 585
Query: 442 QP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
P + LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 586 LPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 645
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 646 IEAKALRKLKHPSRSRKLRSFL 667
>gi|421074930|ref|ZP_15535949.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
gi|392526990|gb|EIW50097.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
Length = 377
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 97/285 (34%), Positives = 156/285 (54%), Gaps = 31/285 (10%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P D E+ A M E A+ +L + NLRLV+ + K+Y
Sbjct: 113 KEIGRVPLLTADEEIKLAQRME--------EGDEEAKRRLAEANLRLVVSIAKRYV---G 161
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 162 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 218
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL EL R P EEI + ++IS ER RE+MK ++ +SL +
Sbjct: 219 --VHMVETINKLIRVSRQLLQELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPI 276
Query: 419 GVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLD 472
G ++ + D +E+++ PA LL+ L++VL++L P+E V+R RFGLD
Sbjct: 277 GEEEDSHLG-----DFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGLD 331
Query: 473 GKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
RTL E+ + ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 332 DGRARTLEEVGQHFGVTRERIRQIEAKALRKLRHPSRSKKLKDFL 376
>gi|320096194|ref|ZP_08027783.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp.
oral taxon 178 str. F0338]
gi|319976875|gb|EFW08629.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp.
oral taxon 178 str. F0338]
Length = 543
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 86/248 (34%), Positives = 144/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + ++ S
Sbjct: 303 GQQAKNHLLEANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFS 359
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 360 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 414
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + + + LL+
Sbjct: 415 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQ 474
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 475 LHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 534
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 535 SQVLRDYL 542
>gi|312883925|ref|ZP_07743642.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC
BAA-2122]
gi|309368383|gb|EFP95918.1| RNA polymerase sigma factor RpoD [Vibrio caribbenthicus ATCC
BAA-2122]
Length = 618
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + + + + D+ R ++ + E T+++ +K + +G A
Sbjct: 320 WLDEILASDKPYAEKIRRSEDDIRRSIAKLKTIEEETSLTVQSIKDISRRMSIGEAKARR 379
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 380 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 436
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 437 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 491
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 492 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATAGSLK 546
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
+A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 547 VATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 606
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 607 SRSETLRSFL 616
>gi|30264362|ref|NP_846739.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Ames]
gi|47529811|ref|YP_021160.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. 'Ames
Ancestor']
gi|49187190|ref|YP_030442.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Sterne]
gi|49481307|ref|YP_038350.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis serovar
konkukian str. 97-27]
gi|52141207|ref|YP_085621.1| RNA polymerase sigma factor RpoD [Bacillus cereus E33L]
gi|65321666|ref|ZP_00394625.1| COG0568: DNA-directed RNA polymerase, sigma subunit
(sigma70/sigma32) [Bacillus anthracis str. A2012]
gi|118479464|ref|YP_896615.1| RNA polymerase sigma factor RpoD [Bacillus thuringiensis str. Al
Hakam]
gi|165872043|ref|ZP_02216683.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488]
gi|167634513|ref|ZP_02392833.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442]
gi|167638663|ref|ZP_02396939.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193]
gi|170687516|ref|ZP_02878733.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465]
gi|170707362|ref|ZP_02897816.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389]
gi|196046412|ref|ZP_03113638.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108]
gi|218905429|ref|YP_002453263.1| RNA polymerase sigma factor RpoD [Bacillus cereus AH820]
gi|225866273|ref|YP_002751651.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102]
gi|228929335|ref|ZP_04092360.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pondicheriensis BGSC 4BA1]
gi|228935612|ref|ZP_04098427.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
andalousiensis BGSC 4AW1]
gi|228948006|ref|ZP_04110292.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
monterrey BGSC 4AJ1]
gi|229093361|ref|ZP_04224468.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42]
gi|229123831|ref|ZP_04253025.1| RNA polymerase sigma factor [Bacillus cereus 95/8201]
gi|229186532|ref|ZP_04313694.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1]
gi|229601154|ref|YP_002868581.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. A0248]
gi|254684050|ref|ZP_05147910.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str.
CNEVA-9066]
gi|254736399|ref|ZP_05194105.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Western
North America USA6153]
gi|254741437|ref|ZP_05199124.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Kruger B]
gi|254757799|ref|ZP_05209826.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. Australia
94]
gi|376268189|ref|YP_005120901.1| RNA polymerase sigma factor RpoD [Bacillus cereus F837/76]
gi|386738182|ref|YP_006211363.1| RpoD family RNA polymerase sigma-70 subunit [Bacillus anthracis
str. H9401]
gi|421506548|ref|ZP_15953471.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. UR-1]
gi|421638370|ref|ZP_16078966.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. BF1]
gi|30259020|gb|AAP28225.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Ames]
gi|47504959|gb|AAT33635.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. 'Ames
Ancestor']
gi|49181117|gb|AAT56493.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. Sterne]
gi|49332863|gb|AAT63509.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis serovar
konkukian str. 97-27]
gi|51974676|gb|AAU16226.1| RNA polymerase sigma-43 factor [Bacillus cereus E33L]
gi|118418689|gb|ABK87108.1| RNA polymerase sigma-43 factor [Bacillus thuringiensis str. Al
Hakam]
gi|164712174|gb|EDR17711.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0488]
gi|167513511|gb|EDR88881.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0193]
gi|167529965|gb|EDR92700.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0442]
gi|170127606|gb|EDS96479.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0389]
gi|170668711|gb|EDT19457.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0465]
gi|196022882|gb|EDX61563.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB108]
gi|218536133|gb|ACK88531.1| RNA polymerase sigma-43 factor [Bacillus cereus AH820]
gi|225787167|gb|ACO27384.1| RNA polymerase sigma-43 factor [Bacillus cereus 03BB102]
gi|228596963|gb|EEK54621.1| RNA polymerase sigma factor [Bacillus cereus BGSC 6E1]
gi|228659652|gb|EEL15298.1| RNA polymerase sigma factor [Bacillus cereus 95/8201]
gi|228690017|gb|EEL43818.1| RNA polymerase sigma factor [Bacillus cereus Rock3-42]
gi|228811696|gb|EEM58031.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
monterrey BGSC 4AJ1]
gi|228824052|gb|EEM69869.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
andalousiensis BGSC 4AW1]
gi|228830349|gb|EEM75961.1| RNA polymerase sigma factor [Bacillus thuringiensis serovar
pondicheriensis BGSC 4BA1]
gi|229265562|gb|ACQ47199.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. A0248]
gi|364513989|gb|AEW57388.1| RNA polymerase sigma factor RpoD [Bacillus cereus F837/76]
gi|384388034|gb|AFH85695.1| RNA polymerase, sigma 70 subunit, RpoD family [Bacillus anthracis
str. H9401]
gi|401823541|gb|EJT22688.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. UR-1]
gi|403394796|gb|EJY92036.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. BF1]
Length = 373
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/281 (32%), Positives = 155/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
++A+ T M+ ++++ + + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 399 ADIAQITGMTLKELRRIVTMVQKGEREARIAKTEMVEANLRLVISIAKKYTN---RGLQF 455
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 456 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 510
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + +++ E+ R+VMK +K +SL + G ++
Sbjct: 511 IETINKLVRTSRQILHEIGREPTPEELAERLSMPLEKVRKVMKIAKEPISLETPIGDEED 570
Query: 424 ----EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI N I VD N L+ + VL SL P+E V+R RFG+ D
Sbjct: 571 SHLGDFIEDKNAIIPVDAAIQAN------LKETVTRVLASLTPREERVLRMRFGIGMNTD 624
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R +R +
Sbjct: 625 HTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKMRSFL 665
>gi|449131100|ref|ZP_21767317.1| RNA polymerase sigma factor RpoD [Treponema denticola SP37]
gi|448940446|gb|EMB21352.1| RNA polymerase sigma factor RpoD [Treponema denticola SP37]
Length = 619
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 117/377 (31%), Positives = 202/377 (53%), Gaps = 21/377 (5%)
Query: 150 QVKRPKRLSLDKRIELRKNEDEKV----VTKTRKT-DSKDEHEKIEKLVREYSYSTDLVS 204
Q R K + KRI + E EK+ + T K D + + E+ EK + SY+ DL
Sbjct: 253 QALRKKMFNSLKRIHIESEEIEKISDRFIEATEKVQDYQHKKERKEKQLGIKSYA-DLRK 311
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE--LAEATNMSA 262
L K++ IP E + ++ Q+ + L + + + D E + E ++++
Sbjct: 312 LG-KRLAIPREREKLEKELNISANEVKDIYTQI-QVLTRKIRKIEYDFEATVDEVIDLTS 369
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++F
Sbjct: 370 -EIKSGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEKF 425
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +L
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQKL 480
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQ 440
R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N+
Sbjct: 481 GREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNR 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
+ LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E KG
Sbjct: 541 TELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKG 600
Query: 501 LMKLKHPTRVDYLRQHM 517
L +L+HP R L+ ++
Sbjct: 601 LRRLRHPKRSRKLKDYL 617
>gi|228993035|ref|ZP_04152958.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442]
gi|228999085|ref|ZP_04158667.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17]
gi|229006633|ref|ZP_04164267.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4]
gi|228754494|gb|EEM03905.1| RNA polymerase sigma factor [Bacillus mycoides Rock1-4]
gi|228760702|gb|EEM09666.1| RNA polymerase sigma factor [Bacillus mycoides Rock3-17]
gi|228766683|gb|EEM15323.1| RNA polymerase sigma factor [Bacillus pseudomycoides DSM 12442]
Length = 373
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 172/314 (54%), Gaps = 31/314 (9%)
Query: 206 DWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQV 265
D + + +PP + K+ P+++++ K++GR P + AE A ++
Sbjct: 94 DLEDLSVPPGV---------KINDPVRMYL-------KEIGRVP--LLSAEEEIELAKRI 135
Query: 266 KKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
++ E +AA LIK NLRLV+ + K+Y G F DL Q G GLI A+++F+ +
Sbjct: 136 EQGDEEAKAA---LIKANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDFR 189
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
+ F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 190 KGFKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGRD 244
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQP 443
PT EEI + +++SP++ RE+MK ++ +SL + G + + I D D + +
Sbjct: 245 PTPEEIAEEMDMSPDKVREIMKIAQEPVSLETPIGEEDDSHLGDFIPDDDALAPADAAAY 304
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L K
Sbjct: 305 ELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 364
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R L+ +
Sbjct: 365 LRHPSRSKRLKDFL 378
>gi|89055941|ref|YP_511392.1| RNA polymerase sigma factor RpoD [Jannaschia sp. CCS1]
gi|88865490|gb|ABD56367.1| RNA polymerase, sigma 70 subunit, RpoD [Jannaschia sp. CCS1]
Length = 668
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 419 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 475
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 476 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPV-----HMIETINKLVRTGRQMLHEIG 530
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 531 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 590
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 591 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 644
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 645 IEAKALRKLKHPSRSRKLRSFL 666
>gi|89070863|ref|ZP_01158102.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516]
gi|89043551|gb|EAR49761.1| RNA polymerase sigma factor [Oceanicola granulosus HTCC2516]
Length = 657
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 408 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 464
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 465 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 519
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 520 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 579
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 580 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 633
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 634 IEAKALRKLKHPSRSRKLRSFL 655
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 96/279 (34%), Positives = 152/279 (54%), Gaps = 29/279 (10%)
Query: 254 LAEATNMSAAQ-------VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T +S ++ VKK A+ ++++ NLRLV+ V KKY G +F D
Sbjct: 400 LASETGISISEFRCIVSMVKKGEREANIAKKEMVEANLRLVICVAKKYSN---RGLQFLD 456
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE KR ++ STY ++WIR A+ R++ S T R+P +++
Sbjct: 457 LIQEGNIGLMKAVDKFEYKRGYKFSTYAMWWIRQAVTRAIADHSRTIRIP-----VHMIE 511
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-- 423
+I R ++L E+ R PT +E+ + + + E+ R+V+K +K +SL + G ++
Sbjct: 512 TINKIVRTSRQMLNEIGREPTPDELAEKLIMPLEKVRKVLKIAKEPISLETPVGDEEDSH 571
Query: 424 --EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+FI N I+ +D N R+ L VL SL P+E V+R RFG+ D T
Sbjct: 572 LGDFIEDKNAISPIDAAIQSNLRETTTL------VLASLTPREERVLRMRFGIGMNTDHT 625
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 626 LEEVGQQFSVTRERIRQIEAKALRKLKHPSRSKKLRSFL 664
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 168/316 (53%), Gaps = 31/316 (9%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
++ + +PP + K+ P+++++ K++GR P L+ + A
Sbjct: 87 GFEYDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLA 127
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
Q + + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 128 Q--RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 182
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL
Sbjct: 183 YQKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELG 237
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R P EEI + ++++PE+ RE+MK ++ +SL + G + + I D + + +
Sbjct: 238 REPAPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAA 297
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 298 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 357
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 358 RKLRHPSRSKRLKDFL 373
>gi|284031355|ref|YP_003381286.1| RpoD subfamily RNA polymerase sigma-70 subunit [Kribbella flavida
DSM 17836]
gi|283810648|gb|ADB32487.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kribbella flavida
DSM 17836]
Length = 442
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 143/250 (57%), Gaps = 10/250 (4%)
Query: 270 EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFR 329
E GR A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++
Sbjct: 200 EDGRRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYK 256
Query: 330 LSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDE 388
STY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT E
Sbjct: 257 FSTYATWWIRQAITRAMADQARTIRIP-----VHMVEVINKLARVQRQMLQDLGREPTPE 311
Query: 389 EIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLR 447
E+ + ++++PE+ EV K + +SLH+ G + EF + I D + + LL+
Sbjct: 312 ELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPAEAVSFTLLQ 371
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP
Sbjct: 372 EQLHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHP 431
Query: 508 TRVDYLRQHM 517
+R LR ++
Sbjct: 432 SRSQVLRDYL 441
>gi|414562416|ref|YP_005617607.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. JF99
(Acyrthosiphon pisum)]
gi|311086952|gb|ADP67032.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. JF99
(Acyrthosiphon pisum)]
Length = 612
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 94/281 (33%), Positives = 157/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 455
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G +
Sbjct: 456 IETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDD 515
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 516 SHLGDFIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTD 569
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 570 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>gi|312113102|ref|YP_004010698.1| RpoD subfamily RNA polymerase sigma-70 subunit [Rhodomicrobium
vannielii ATCC 17100]
gi|311218231|gb|ADP69599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Rhodomicrobium
vannielii ATCC 17100]
Length = 697
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 93/279 (33%), Positives = 152/279 (54%), Gaps = 29/279 (10%)
Query: 254 LAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQD 306
LA T + A+ ++ +++ R A+ ++++ NLRLV+ + KKY G +F D
Sbjct: 431 LATETGLDIAEFRRIVKIVQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLD 487
Query: 307 LCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQ 365
L Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +++
Sbjct: 488 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIE 542
Query: 366 VRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-- 423
+I R +++ E+ R PT EE+ + +++ E+ R+V+K +K +SL + G ++
Sbjct: 543 TINKIVRTSRQMMHEIGREPTPEELAEKLSMPLEKVRKVLKIAKEPISLETPIGDEEDSH 602
Query: 424 --EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRT 478
+FI N I +D N LR VL SL P+E V+R RFG+ D T
Sbjct: 603 LGDFIEDKNAILPIDAAIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHT 656
Query: 479 LGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 657 LEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 695
>gi|339504424|ref|YP_004691844.1| RNA polymerase sigma factor RpoD [Roseobacter litoralis Och 149]
gi|338758417|gb|AEI94881.1| RNA polymerase sigma factor RpoD [Roseobacter litoralis Och 149]
Length = 660
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 411 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 467
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 468 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 522
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 523 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 582
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 583 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 636
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 637 IEAKALRKLKHPSRSRKLRSFL 658
>gi|401678685|ref|ZP_10810644.1| RNA polymerase sigma-70 factor [Enterobacter sp. SST3]
gi|400214112|gb|EJO45039.1| RNA polymerase sigma-70 factor [Enterobacter sp. SST3]
Length = 615
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 311 NETSETWFNAAIAMNKPWSEKLHDVKEDVYRGLQKLQQIEEETGLTIEQVKDINRRMSIG 370
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 371 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 427
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 428 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 482
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 541
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 542 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 596
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 597 LRKLRHPSRSEVLRSFL 613
>gi|386398278|ref|ZP_10083056.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
WSM1253]
gi|385738904|gb|EIG59100.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
WSM1253]
Length = 716
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 468 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 524
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 525 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 579
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 580 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 639
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 640 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 693
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 694 EAKALRKLKHPSRSRKLRSFL 714
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR +
Sbjct: 363 LRDFI 367
>gi|209884282|ref|YP_002288139.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5]
gi|337742031|ref|YP_004633759.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5]
gi|386031047|ref|YP_005951822.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM4]
gi|209872478|gb|ACI92274.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5]
gi|336096115|gb|AEI03941.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM4]
gi|336099695|gb|AEI07518.1| RNA polymerase sigma factor RpoD [Oligotropha carboxidovorans OM5]
Length = 708
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 460 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 516
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 517 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 571
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 572 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 631
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 632 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 685
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 686 EAKALRKLKHPSRSRKLRSFL 706
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 100/315 (31%), Positives = 170/315 (53%), Gaps = 31/315 (9%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR P + AE A +
Sbjct: 86 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGRVP--LLTAEEEIELATR 127
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 128 IEQGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 181
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 182 NKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 236
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P+ EE+ + ++++PE+ RE++K ++ +SL + G + + I D D + +
Sbjct: 237 EPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAA 296
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 297 YELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALR 356
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 357 KLRHPSRSKRLKDFL 371
>gi|350552445|ref|ZP_08921646.1| RNA polymerase, sigma 70 subunit, RpoD [Thiorhodospira sibirica
ATCC 700588]
gi|349794184|gb|EGZ48004.1| RNA polymerase, sigma 70 subunit, RpoD [Thiorhodospira sibirica
ATCC 700588]
Length = 673
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 97/316 (30%), Positives = 172/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ T WL L++ + +Q + ++ R + V + E T +S +++K + +G
Sbjct: 368 NETNLKWLDGLVKEKTPYAAALQQNKDEILRIQKQLVAIEEETGLSISEIKDINRRMSIG 427
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 428 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 484
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R T
Sbjct: 485 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREATP 539
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP--AL 445
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ N P +
Sbjct: 540 EELSRRMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSNVMSPIESA 594
Query: 446 LRLALD----DVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
R +L DVL SL P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 595 TRESLSETTRDVLSSLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 654
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 655 RKLRHPSRSEMLRSFL 670
>gi|339500011|ref|YP_004698046.1| RpoD subfamily RNA polymerase sigma-70 subunit [Spirochaeta
caldaria DSM 7334]
gi|338834360|gb|AEJ19538.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta
caldaria DSM 7334]
Length = 578
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/264 (34%), Positives = 148/264 (56%), Gaps = 10/264 (3%)
Query: 256 EATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGL 315
E N A ++ + + ++A+++LIK NLRLV+ + KKY G F DL Q G GL
Sbjct: 321 ENINKMAKEINRGRIMMKSAKDRLIKANLRLVVSIAKKYTN---RGLHFFDLVQEGNIGL 377
Query: 316 ITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAK 374
I A+++FE ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R
Sbjct: 378 IKAVEKFEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVVRES 432
Query: 375 LELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDG 434
+L+ L R PTDEEI + + + +R + V ++ +SL + G ++ + +
Sbjct: 433 RQLMQVLGREPTDEEIAERLGWTAQRVKSVKNVAREPISLETPIGEEEDSLLGDFIEDKD 492
Query: 435 VEN-ENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMV 493
VEN NQ LL+ L VL +L P+E V++ RFGLD TL E+ N++RE +
Sbjct: 493 VENPANQTAFTLLQEQLRTVLQTLPPREQEVLKMRFGLDDGYSLTLEEVGLYFNVTRERI 552
Query: 494 RKHEVKGLMKLKHPTRVDYLRQHM 517
R+ E K L +L+HP R L+ ++
Sbjct: 553 RQIEAKALRRLRHPKRSRKLKDYL 576
>gi|304312382|ref|YP_003811980.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma
proteobacterium HdN1]
gi|301798115|emb|CBL46337.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32) [gamma
proteobacterium HdN1]
Length = 627
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 95/316 (30%), Positives = 173/316 (54%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT-NMSAAQVKKC---LEVG 272
+ T W+ K+ + + L+ D+ + ++ E+T ++S A++K+ + +G
Sbjct: 319 NETNIEWVDKIAGGKTAYAERVGALKDDIIKLQQNLLGLESTLSLSIAEIKEINRRISIG 378
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 379 EAKAARAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 435
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 436 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRVSRQMLQEMGREPTP 490
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA--- 444
EE+ + +++ ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 491 EELGERMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTMQSPVDAA 545
Query: 445 ---LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A DVL SL +E+ V+ RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 546 TAESLREATRDVLASLTAREAKVLAMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 605
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R ++LR +
Sbjct: 606 RKLRHPSRSEHLRSFL 621
>gi|227817068|ref|YP_002817077.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. CDC 684]
gi|227007300|gb|ACP17043.1| RNA polymerase sigma-43 factor [Bacillus anthracis str. CDC 684]
Length = 373
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>gi|254504180|ref|ZP_05116331.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11]
gi|222440251|gb|EEE46930.1| Sigma-70 region 3 family [Labrenzia alexandrii DFL-11]
Length = 671
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/263 (34%), Positives = 144/263 (54%), Gaps = 22/263 (8%)
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
A V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+F
Sbjct: 421 AMVQKGEREARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKF 477
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E +R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 478 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLHEI 532
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDG 434
R PT EE+ + + + E+ R+V+K +K +SL + G ++ +FI N + +D
Sbjct: 533 GREPTPEELAEKLQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDA 592
Query: 435 VENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVR 494
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R
Sbjct: 593 AIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR 646
Query: 495 KHEVKGLMKLKHPTRVDYLRQHM 517
+ E K L KLKHP+R LR +
Sbjct: 647 QIEAKALRKLKHPSRSRKLRSFL 669
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 101/321 (31%), Positives = 170/321 (52%), Gaps = 41/321 (12%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
+ D + +PP + K+ P+++++ KE + DL ++ LAE
Sbjct: 88 AFDLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLSADQEIRLAERIEQGDE 136
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ AR +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 137 E----------ARKRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 183
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 184 HRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 238
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E+ +
Sbjct: 239 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDSEAQS 293
Query: 443 PA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+
Sbjct: 294 PSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 353
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R L+ +
Sbjct: 354 EAKALRKLRHPSRSKRLKDFL 374
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 91/266 (34%), Positives = 148/266 (55%), Gaps = 10/266 (3%)
Query: 254 LAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVK 313
L T ++ + + L A+ +L++ NLRLV+ + +++ G F DL Q G
Sbjct: 205 LVGITELTEEEADRVLHEAEYAKKRLVESNLRLVVSIARRHI---GRGMLFLDLIQEGNM 261
Query: 314 GLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQR 372
GLI A+++F+ ++ F+ STY +WIR AI R++ + T R+P + T VR IQR
Sbjct: 262 GLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLVR--IQR 319
Query: 373 AKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFI-NGITD 431
+L+ EL R P EEI + + I+PE+ RE++K S+ +SL S G + + + I D
Sbjct: 320 ---QLVQELGREPLPEEIAEKMEITPEKAREILKISQEPISLESPVGDEADSSLGDFIPD 376
Query: 432 VDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISRE 491
D + + +L+ L +VL++L +E V+R RFGL+ RTL E+ ++RE
Sbjct: 377 ADALSPSDFTSNEMLKKELAEVLETLTDREERVLRLRFGLEDGHTRTLEEVGKEFGVTRE 436
Query: 492 MVRKHEVKGLMKLKHPTRVDYLRQHM 517
+R+ E K L KL+HP+R L+ M
Sbjct: 437 RIRQIEAKALRKLRHPSRSRRLKDFM 462
>gi|254721884|ref|ZP_05183673.1| RNA polymerase sigma factor RpoD [Bacillus anthracis str. A1055]
Length = 373
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ AE A +
Sbjct: 87 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR--VDLLSAEEEIRLATR 128
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
+++ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 IEEGDE---EAKRRLAEANLRLVVSIAKRYV---GRGILFLDLIQEGNMGLIKAVEKFDY 182
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 183 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 237
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 238 EPSPEEIGEEMDLAPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 292
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
A LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 293 ADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 352
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 353 AKALRKLRHPSRSKRLKDFL 372
>gi|238756616|ref|ZP_04617911.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473]
gi|238705164|gb|EEP97586.1| RNA polymerase sigma factor rpoD [Yersinia ruckeri ATCC 29473]
Length = 613
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETSDTWFAAALAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>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 = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 88/255 (34%), Positives = 146/255 (57%), Gaps = 10/255 (3%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ LE A+ +L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 138 AKRMLEGDEIAKQRLVEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDY 194
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R F+ STY +WIR AI R++ + T R+P +++ ++ R +LL EL R
Sbjct: 195 ERGFKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGR 249
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQ 442
P EEI + +++S E+ RE+MK ++ +SL + G ++ + I D D +
Sbjct: 250 DPKPEEIAKEMDMSEEKVREIMKIAQDPVSLETPIGEEEDSHLGDFIPDEDALAPAEAAA 309
Query: 443 PALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLM 502
+LL+ +++VL SL +E V++ RFGL+ RTL E+ +++RE +R+ E K L
Sbjct: 310 YSLLKDQIEEVLGSLNEREQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALR 369
Query: 503 KLKHPTRVDYLRQHM 517
KL+HP+R LR ++
Sbjct: 370 KLRHPSRSKKLRDYL 384
>gi|115523078|ref|YP_779989.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris
BisA53]
gi|115517025|gb|ABJ05009.1| RNA polymerase, sigma 70 subunit, RpoD [Rhodopseudomonas palustris
BisA53]
Length = 704
Score = 141 bits (355), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 456 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 512
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 513 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 567
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N + +D
Sbjct: 568 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAI 627
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 628 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 681
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 682 EAKALRKLKHPSRSRKLRSFL 702
>gi|260775520|ref|ZP_05884417.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC
BAA-450]
gi|260608701|gb|EEX34866.1| RNA polymerase sigma factor RpoD [Vibrio coralliilyticus ATCC
BAA-450]
Length = 617
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + + + D+ R ++ + E T+++ +K + +G
Sbjct: 313 NESSEAWLDEILSSDKPYAEKIRRSEDDIRRSIMKLKVIEEETSLTVQNIKDISRRMSIG 372
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 373 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 429
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 484
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 485 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 539
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L++A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 540 TSTSLKVATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 599
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 600 RKLRHPSRSETLRSFL 615
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 102/329 (31%), Positives = 174/329 (52%), Gaps = 24/329 (7%)
Query: 197 SYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE 256
+++ D + L +K++ L E L + + ++ E+L++ L R P ++E A
Sbjct: 183 TFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEWAT 242
Query: 257 ATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLI 316
MS ++ LE GR A+N+++ NLRLV V K+Y G FQDL Q GV GL+
Sbjct: 243 EAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQN---RGLDFQDLIQEGVIGLL 299
Query: 317 TAIDRFEPKRRFRLSTYGLFWIRHAIIRSMT-VSSFTRVPFGLESTSIMQVRGEIQRAKL 375
A ++F+ + ++ STYG++WIR AI R++ S R+P L T I Q++ +++ +
Sbjct: 300 RATEKFDHTKGYKFSTYGIWWIRQAITRAICDYSRIVRLPVYLYET-ISQIKKIVKQISI 358
Query: 376 ELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSL----HSRHGVTQEEFI--NGI 429
E T EE+ + ++ E+ + +++ ++ LSL + + +E I NG
Sbjct: 359 EC-----SPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGENIIYKEMIKFNGE 413
Query: 430 TDVDGV-ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNI 488
T V EN L+ ++ VL +L +E V++ RFGLD ++TL EI N+
Sbjct: 414 TPTKYVFEN-------CLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNL 466
Query: 489 SREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+RE +R+ E K L KL+ P R LR+++
Sbjct: 467 TRERIRQIEAKALRKLEDPKRNHILREYI 495
>gi|386714844|ref|YP_006181167.1| RNA polymerase sigma factor SigA [Halobacillus halophilus DSM 2266]
gi|384074400|emb|CCG45893.1| RNA polymerase sigma factor SigA [Halobacillus halophilus DSM 2266]
Length = 382
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 88/245 (35%), Positives = 139/245 (56%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++ ++ STY
Sbjct: 145 AKRDLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYA 201
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T +R +QR +LL +L R PT EEI Q
Sbjct: 202 TWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGREPTPEEIAQD 256
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDD 452
+ ++P++ RE++K ++ +SL + G + + I D + + LL+ L+D
Sbjct: 257 MELTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLED 316
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R
Sbjct: 317 VLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKR 376
Query: 513 LRQHM 517
L+ M
Sbjct: 377 LKDFM 381
>gi|257464575|ref|ZP_05628946.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202]
gi|257450235|gb|EEV24278.1| RNA polymerase sigma factor RpoD [Actinobacillus minor 202]
Length = 621
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/253 (33%), Positives = 145/253 (57%), Gaps = 20/253 (7%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 380 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 436
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E+ R T EE+
Sbjct: 437 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQCLQEMGREATPEEL 491
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ +N+ ++ R+V+K +K +S+ + G + + D +++E+ P
Sbjct: 492 AERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIQDESLELPLDSATAE 546
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
LR+A ++VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 547 SLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606
Query: 505 KHPTRVDYLRQHM 517
+HP+R + LR +
Sbjct: 607 RHPSRSETLRSFL 619
>gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium]
Length = 591
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/287 (32%), Positives = 154/287 (53%), Gaps = 14/287 (4%)
Query: 236 QVKEQLQKDLGREPTDVELAEATNMS--AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKK 293
Q + +++ G+ PT+ E A+ ++++ + GR A+ +++ NLRLV+ + K+
Sbjct: 311 QFQRSFREEHGKSPTESEWAQGCGYGDDVEKLREHIRDGRKAKERMVTANLRLVVSIAKR 370
Query: 294 YFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT- 352
Y G QDL Q G GLI +++F+ +R FR STY +WIR +I R+++ SS +
Sbjct: 371 YSN---RGVALQDLIQEGSIGLIRGVEKFDAERGFRFSTYATWWIRQSITRAISDSSRSI 427
Query: 353 RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPIL 412
R+P + T + I++ L EL R P++EEI + V I +YR VM+ S+ I+
Sbjct: 428 RLPVHVHDTISL-----IRKQTKALQVELGRPPSEEEICESVGIDRAKYRLVMECSRNIV 482
Query: 413 SLHS--RHGVTQEEFINGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFG 470
SL + R G + + EN + L R +++ VL L +E VIR RFG
Sbjct: 483 SLETPLRSGDDVHFLGESLIAPEERAEENCSRDTL-RESIEKVLHCLSTREREVIRMRFG 541
Query: 471 LDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
L RTL E+ N++RE +R+ E K L KL+ P ++L +++
Sbjct: 542 LTDGRPRTLEEVGSRFNVTRERIRQIESKALKKLRTPAENNFLDEYL 588
>gi|15616680|ref|NP_239892.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. APS
(Acyrthosiphon pisum)]
gi|219681437|ref|YP_002467822.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. 5A
(Acyrthosiphon pisum)]
gi|257471112|ref|ZP_05635111.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LSR1
(Acyrthosiphon pisum)]
gi|11134512|sp|P57163.1|RPOD_BUCAI RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-70
gi|25288437|pir||B84936 RNA polymerase sigma factor rpoD [imported] - Buchnera sp. (strain
APS)
gi|10038743|dbj|BAB12778.1| RNA polymerase sigma factor rpoD [Buchnera aphidicola str. APS
(Acyrthosiphon pisum)]
gi|219624280|gb|ACL30435.1| RNA polymerase sigma factor [Buchnera aphidicola str. 5A
(Acyrthosiphon pisum)]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/281 (33%), Positives = 157/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 455
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G +
Sbjct: 456 IETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDD 515
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 516 SHLGDFIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTD 569
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 570 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>gi|410625626|ref|ZP_11336402.1| RNA polymerase primary sigma factor [Glaciecola mesophila KMM 241]
gi|410154836|dbj|GAC23171.1| RNA polymerase primary sigma factor [Glaciecola mesophila KMM 241]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/319 (29%), Positives = 172/319 (53%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T WLF+++ +V+ +E+L++ +G+ + + T + A +K +
Sbjct: 308 NETSTDWLFEILASDAPYVEELKVHQEELERSIGKMNA---VEDETGLIIADIKDINRRM 364
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 365 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 421
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 422 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 476
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 477 PTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTIVQPL 531
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 532 DSATGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 591
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 592 KALRKLRHPSRSEQLRSFL 610
>gi|365157895|ref|ZP_09354140.1| RNA polymerase sigma factor rpoD [Bacillus smithii 7_3_47FAA]
gi|363622565|gb|EHL73724.1| RNA polymerase sigma factor rpoD [Bacillus smithii 7_3_47FAA]
Length = 377
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 170/320 (53%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ KE + DL ++ELA
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL--KEIGRVDLLSAEEEIELA--------- 130
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
K+ + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 131 -KRIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 186
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ ++ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 187 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 241
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
PT EEI + +++SPE+ RE++K ++ +SL + G + + D +E+ P
Sbjct: 242 EPTPEEIGEEMDLSPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDHEATSP 296
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 297 SEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 356
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 357 AKALRKLRHPSRSKRLKDFL 376
>gi|322831339|ref|YP_004211366.1| RNA polymerase sigma-70 subunit RpoD [Rahnella sp. Y9602]
gi|383188571|ref|YP_005198699.1| sigma-70 family RNA polymerase sigma factor [Rahnella aquatilis CIP
78.65 = ATCC 33071]
gi|384256453|ref|YP_005400387.1| RNA polymerase sigma factor RpoD [Rahnella aquatilis HX2]
gi|321166540|gb|ADW72239.1| RNA polymerase, sigma 70 subunit, RpoD [Rahnella sp. Y9602]
gi|371586829|gb|AEX50559.1| RNA polymerase sigma factor, sigma-70 family [Rahnella aquatilis
CIP 78.65 = ATCC 33071]
gi|380752429|gb|AFE56820.1| RNA polymerase sigma factor RpoD [Rahnella aquatilis HX2]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++ +D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFDAALAMGKPWSEKLKEVTEDVQRGLMKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 142 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 198
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 199 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 253
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 254 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 313
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 314 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 373
Query: 513 LRQHM 517
L+ M
Sbjct: 374 LKDFM 378
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR +
Sbjct: 363 LRDFI 367
>gi|449128429|ref|ZP_21764675.1| RNA polymerase sigma factor RpoD [Treponema denticola SP33]
gi|448940837|gb|EMB21741.1| RNA polymerase sigma factor RpoD [Treponema denticola SP33]
Length = 619
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 117/377 (31%), Positives = 202/377 (53%), Gaps = 21/377 (5%)
Query: 150 QVKRPKRLSLDKRIELRKNEDEKV----VTKTRKT-DSKDEHEKIEKLVREYSYSTDLVS 204
Q R K + KRI + E EK+ + T K D + + E+ EK + SY+ DL
Sbjct: 253 QALRKKVFNSLKRIHIESEEIEKISDRFIEATEKVQDYQHKKERKEKQLGIKSYA-DLRK 311
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE--LAEATNMSA 262
L K++ IP E + ++ Q+ + L + + + D E + E ++++
Sbjct: 312 LG-KRLAIPREREKLEKELHISANEVKDIYTQI-QVLTRKIRKVEYDFEATVDEVIDLTS 369
Query: 263 AQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRF 322
++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++F
Sbjct: 370 -EIKNGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEKF 425
Query: 323 EPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFEL 381
E ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +L
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQKL 480
Query: 382 KRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-ENQ 440
R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N+
Sbjct: 481 GREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNR 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
+ LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E KG
Sbjct: 541 TELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKG 600
Query: 501 LMKLKHPTRVDYLRQHM 517
L +L+HP R L+ ++
Sbjct: 601 LRRLRHPKRSRKLKDYL 617
>gi|33151868|ref|NP_873221.1| RNA polymerase sigma factor RpoD [Haemophilus ducreyi 35000HP]
gi|33148089|gb|AAP95610.1| RNA polymerase sigma factor [Haemophilus ducreyi 35000HP]
Length = 613
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 90/281 (32%), Positives = 155/281 (55%), Gaps = 34/281 (12%)
Query: 254 LAEATNMSAAQVKKCLEVG----------RAARNKLIKHNLRLVLFVIKKYFQDFANGPR 303
+ + T+++ AQ++ E+G R A+ ++++ NLRLV+ + KKY G +
Sbjct: 348 MEQDTDLTVAQIR---EIGGRIASGELKARRAKKEMVEANLRLVISIAKKYTN---RGLQ 401
Query: 304 FQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTS 362
F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P
Sbjct: 402 FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VH 456
Query: 363 IMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ 422
+++ ++ R + L E+ R T EE+ + + + ++ R+V+K +K +S+ + G
Sbjct: 457 MIETINKLNRISRQCLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDD 516
Query: 423 EEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
D +++EN P LRLA ++VL+ L P+E+ V+R RFG+D D
Sbjct: 517 SHL------GDFIQDENLELPLDSATAESLRLATNEVLEGLTPREAKVLRMRFGIDMNTD 570
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 571 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFL 611
>gi|383774184|ref|YP_005453251.1| sigma 70 [Bradyrhizobium sp. S23321]
gi|381362309|dbj|BAL79139.1| sigma 70 [Bradyrhizobium sp. S23321]
Length = 713
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 158/301 (52%), Gaps = 31/301 (10%)
Query: 232 KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNL 284
K FV ++ KDL E +LA T + + +K + R A+ ++++ NL
Sbjct: 427 KNFVHHEKDRIKDLRHEVH--QLAALTGLEIVEFRKIVHSVQKGEREARQAKKEMVEANL 484
Query: 285 RLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIR 344
RLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI R
Sbjct: 485 RLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 541
Query: 345 SMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYRE 403
S+ + T R+P +++ +I R ++L E+ R PT EE+ + + + E+ R+
Sbjct: 542 SIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRK 596
Query: 404 VMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQPALLRLALDDVLDS 456
V+K +K LSL + G ++ +FI N I +D N LR VL S
Sbjct: 597 VLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAIQSN------LRETTTRVLAS 650
Query: 457 LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQH 516
L P+E V+R RFG+ D TL E+ +++RE +R+ E K L KLKHP+R LR
Sbjct: 651 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 710
Query: 517 M 517
+
Sbjct: 711 L 711
>gi|365972142|ref|YP_004953703.1| RNA polymerase sigma factor rpoD [Enterobacter cloacae EcWSU1]
gi|365751055|gb|AEW75282.1| RNA polymerase sigma factor rpoD [Enterobacter cloacae EcWSU1]
Length = 633
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + +++D+ R + ++ E T ++ QVK + +G
Sbjct: 329 NETSETWFNAAIAMNKPWSEKLHDVKEDVFRGLQKLHQIEEETGLTIEQVKDINRRMSIG 388
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 389 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 445
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 446 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 500
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 501 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 559
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 560 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 614
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 615 LRKLRHPSRSEVLRSFL 631
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 96/316 (30%), Positives = 168/316 (53%), Gaps = 31/316 (9%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAA 263
++ + +PP + K+ P+++++ K++GR P L+ + A
Sbjct: 87 GFEYDDLSVPPGI---------KINDPVRMYL-------KEIGRVPL---LSAEEEIKLA 127
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
Q + + A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 128 Q--RIEQGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 182
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ ++ STY +WIR AI R++ + T R+P +++ ++ R +LL EL
Sbjct: 183 YQKGYKFSTYATWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELG 237
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R P EEI + ++++PE+ RE+MK ++ +SL + G + + I D + + +
Sbjct: 238 REPAPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAA 297
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 298 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 357
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 358 RKLRHPSRSKRLKDFL 373
>gi|374577873|ref|ZP_09650969.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
WSM471]
gi|374426194|gb|EHR05727.1| RNA polymerase sigma factor, sigma-70 family [Bradyrhizobium sp.
WSM471]
Length = 716
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 468 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 524
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 525 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 579
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 580 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 639
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 640 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 693
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 694 EAKALRKLKHPSRSRKLRSFL 714
>gi|332163001|ref|YP_004299578.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica 105.5R(r)]
gi|386309953|ref|YP_006006009.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica Y11]
gi|418241497|ref|ZP_12868025.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica PhRBD_Ye1]
gi|433550959|ref|ZP_20507002.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica IP 10393]
gi|318604173|emb|CBY25671.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica Y11]
gi|325667231|gb|ADZ43875.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica 105.5R(r)]
gi|351779170|gb|EHB21291.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
palearctica PhRBD_Ye1]
gi|431788058|emb|CCO70042.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica IP 10393]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|238789198|ref|ZP_04632986.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC
33641]
gi|238722730|gb|EEQ14382.1| RNA polymerase sigma factor rpoD [Yersinia frederiksenii ATCC
33641]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|229817449|ref|ZP_04447731.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM
20098 = JCM 7096]
gi|229785238|gb|EEP21352.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM
20098 = JCM 7096]
Length = 482
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/256 (33%), Positives = 148/256 (57%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K G+ A++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 233 ELKWAANDGKKAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 289
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
K+ F+ STY +WIR AI R+M + T RVP +++V ++ R + ++L +L
Sbjct: 290 WKKGFKFSTYATWWIRQAITRAMADQARTIRVP-----VHMVEVINKLSRVQRQMLQDLG 344
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I D D + +
Sbjct: 345 REPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAV 404
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LL+ VL++L P+ES VI+ R+GL+ +TL +I ++RE +R+ E K +
Sbjct: 405 AFSLLQDQFKQVLETLSPRESGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 464
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 465 SKLRHPSRSQTLRDFL 480
>gi|418294104|ref|ZP_12906005.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri ATCC 14405 =
CCUG 16156]
gi|379065488|gb|EHY78231.1| RNA polymerase sigma factor RpoD [Pseudomonas stutzeri ATCC 14405 =
CCUG 16156]
Length = 617
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 89/280 (31%), Positives = 156/280 (55%), Gaps = 27/280 (9%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+EL + N++ A +K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 349 IELQQECNLAIADIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 405
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 406 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHM 460
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 461 IETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKVLKIAKEPISMETPIGDDED 520
Query: 424 EFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+ D +E+ + P L+ A +VL L +E+ V+R RFG+D D
Sbjct: 521 SHLG-----DFIEDSAMQSPIDVATVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDH 575
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HPTR ++LR +
Sbjct: 576 TLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHLRSFL 615
>gi|344339320|ref|ZP_08770249.1| RNA polymerase, sigma 70 subunit, RpoD [Thiocapsa marina 5811]
gi|343800624|gb|EGV18569.1| RNA polymerase, sigma 70 subunit, RpoD [Thiocapsa marina 5811]
Length = 610
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/311 (30%), Positives = 169/311 (54%), Gaps = 18/311 (5%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATN-MSAAQVKKC---LEVG 272
+ T WL + + K + ++ +D+ R ++ E N ++ ++VK + +G
Sbjct: 305 NETNPQWLEQQLASGKPYAARLAEVAQDIRRAQRKLQEMEKENILTISEVKDVNRKMSIG 364
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 365 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 421
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R +++ E+ R T
Sbjct: 422 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMIQEMGREATP 476
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPAL-L 446
EE+ Q +++ ++ R+V+K +K +S+ + G ++ + + GV + A L
Sbjct: 477 EELAQRMDMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSGVISPVDSATAEGL 536
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
R A ++L SL +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 537 REATQNMLASLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 596
Query: 507 PTRVDYLRQHM 517
PTR D LR +
Sbjct: 597 PTRSDKLRSFL 607
>gi|308188146|ref|YP_003932277.1| RNA polymerase sigma factor rpoD (sigma-70) [Pantoea vagans C9-1]
gi|308058656|gb|ADO10828.1| RNA polymerase sigma factor rpoD (Sigma-70) [Pantoea vagans C9-1]
Length = 613
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + ++Q D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETNESWFKAALAMNKPWSEKLLEVQDDVMRSLQKLAQVEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR +
Sbjct: 363 LRDFI 367
>gi|386390298|ref|ZP_10075089.1| RNA polymerase sigma factor RpoD [Haemophilus paraphrohaemolyticus
HK411]
gi|385693333|gb|EIG23982.1| RNA polymerase sigma factor RpoD [Haemophilus paraphrohaemolyticus
HK411]
Length = 624
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/253 (33%), Positives = 145/253 (57%), Gaps = 20/253 (7%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 383 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 439
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E+ R T EE+
Sbjct: 440 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQCLQEMGREATPEEL 494
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ +N+ ++ R+V+K +K +S+ + G + + D +++E+ P
Sbjct: 495 AERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIQDESLELPLDSATAE 549
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
LR+A ++VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 550 SLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 609
Query: 505 KHPTRVDYLRQHM 517
+HP+R + LR +
Sbjct: 610 RHPSRSETLRSFL 622
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/293 (31%), Positives = 164/293 (55%), Gaps = 9/293 (3%)
Query: 214 PVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGR 273
P+L+ E K +Q + +++E++ ++ G+EPT+ + A+A +S + + +E G
Sbjct: 22 PLLTHEEEILYAKRVQRLVNLEKLREEIIEETGQEPTESQWAKAAKLSKREFRSIVESGE 81
Query: 274 AARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTY 333
AA+ K+++ NLRLV+ V KKY + + DL Q G G+ +++F+P + +R STY
Sbjct: 82 AAKRKMVEANLRLVVSVAKKYLKRNLD---LLDLIQEGTIGMQRGVEKFDPTKGYRFSTY 138
Query: 334 GLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQ 392
+WIR AI R++ S T R+P I + +I++A+ EL + R T E+ +
Sbjct: 139 AYWWIRQAITRAIAEKSRTIRLPI-----HITEKLNKIKKAQRELSQQKGRAATVTELAE 193
Query: 393 GVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPALLRLALDD 452
++++P++ RE ++ ++ LSL R G Q+ + + + DG E+ + L+ L+
Sbjct: 194 ELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLEDDGQSPEDFATHSSLQFDLER 253
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLK 505
+++ L ++ VI RFGL TL +I LNISRE VR+ E + L KL+
Sbjct: 254 LMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKLR 306
>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 = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/258 (35%), Positives = 146/258 (56%), Gaps = 20/258 (7%)
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
K E + AR +L + NLRLV+ + K+Y G +F DL Q G GL+ A+++F+ K+
Sbjct: 128 KIEEGDQEARQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVEKFDYKK 184
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVP 385
F+ STY +WIR AI R++ + T R+P + T +R IQR +LL +L R P
Sbjct: 185 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--IQR---QLLQDLGREP 239
Query: 386 TDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA- 444
T EEI +++ E+ RE++K ++ +SL + G + + D +E+ + PA
Sbjct: 240 TPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDHDATSPAE 294
Query: 445 -----LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 499
LL+ L+DVLD+L +E V+R RFGLD +RTL ++ ++RE +R+ E K
Sbjct: 295 NAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAK 354
Query: 500 GLMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ +
Sbjct: 355 ALRKLRHPSRSKQLKDFL 372
>gi|109897363|ref|YP_660618.1| RNA polymerase sigma-70 subunit RpoD [Pseudoalteromonas atlantica
T6c]
gi|109699644|gb|ABG39564.1| RNA polymerase, sigma 70 subunit, RpoD [Pseudoalteromonas atlantica
T6c]
Length = 613
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/319 (29%), Positives = 172/319 (53%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T WLF+++ +V+ +E+L++ +G+ + + T + A +K +
Sbjct: 309 NETSTDWLFEILASDAPYVEELKVHQEELERSIGKMNA---VEDETGLIIADIKDINRRM 365
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 366 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGRE 477
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 478 PTPEELSERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTIVQPL 532
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 533 DSATGGSLKNATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 592
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + LR +
Sbjct: 593 KALRKLRHPSRSEQLRSFL 611
>gi|398828936|ref|ZP_10587136.1| RNA polymerase sigma factor, sigma-70 family [Phyllobacterium sp.
YR531]
gi|398217794|gb|EJN04311.1| RNA polymerase sigma factor, sigma-70 family [Phyllobacterium sp.
YR531]
Length = 675
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 91/261 (34%), Positives = 144/261 (55%), Gaps = 20/261 (7%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 426 QVQKGEREAALAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 482
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P + ++ +I R ++L E+
Sbjct: 483 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKIVRTSRQMLHEIG 537
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT EE+ + + + E+ R+V+K +K +SL + G ++ + D +E++N
Sbjct: 538 REPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLG-----DFIEDKNALL 592
Query: 443 P------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P A LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 593 PIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 652
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 653 EAKALRKLKHPSRSRKLRSFL 673
>gi|219681993|ref|YP_002468377.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Tuc7
(Acyrthosiphon pisum)]
gi|219621726|gb|ACL29882.1| RNA polymerase sigma factor [Buchnera aphidicola str. Tuc7
(Acyrthosiphon pisum)]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/281 (33%), Positives = 157/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 455
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G +
Sbjct: 456 IETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDD 515
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 516 SHLGDFIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTD 569
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 570 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>gi|16761985|ref|NP_457602.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. CT18]
gi|25288442|pir||AB0893 RNA polymerase sigma-70 factor [imported] - Salmonella enterica
subsp. enterica serovar Typhi (strain CT18)
gi|16504288|emb|CAD07736.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhi]
gi|29139106|gb|AAO70674.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhi str. Ty2]
Length = 660
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|429101731|ref|ZP_19163705.1| RNA polymerase sigma factor RpoD [Cronobacter turicensis 564]
gi|426288380|emb|CCJ89818.1| RNA polymerase sigma factor RpoD [Cronobacter turicensis 564]
Length = 614
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 168/317 (52%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVADDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|240948851|ref|ZP_04753207.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305]
gi|240296666|gb|EER47277.1| RNA polymerase sigma factor RpoD [Actinobacillus minor NM305]
Length = 621
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/253 (33%), Positives = 145/253 (57%), Gaps = 20/253 (7%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 380 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 436
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E+ R T EE+
Sbjct: 437 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQCLQEMGREATPEEL 491
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ +N+ ++ R+V+K +K +S+ + G + + D +++E+ P
Sbjct: 492 AERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIQDESLELPLDSATAE 546
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
LR+A ++VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 547 SLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 606
Query: 505 KHPTRVDYLRQHM 517
+HP+R + LR +
Sbjct: 607 RHPSRSETLRSFL 619
>gi|148979373|ref|ZP_01815479.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3]
gi|145961809|gb|EDK27102.1| RNA polymerase sigma factor RpoD [Vibrionales bacterium SWAT-3]
Length = 614
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ + D+ R +++ E T+++ +K + +G
Sbjct: 310 NESSEAWLDEVLASDKPYAEKIKRHENDIRRSIQKLDMIEKETSLTVQSIKDISRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R P
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPLP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 482 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 536
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 537 TATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 597 RKLRHPSRSETLRSFL 612
>gi|359430820|ref|ZP_09221804.1| RNA polymerase sigma factor RpoD [Acinetobacter sp. NBRC 100985]
gi|358233713|dbj|GAB03343.1| RNA polymerase sigma factor RpoD [Acinetobacter sp. NBRC 100985]
Length = 628
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/296 (31%), Positives = 160/296 (54%), Gaps = 34/296 (11%)
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA----ARNKLIKHNLRLVL 288
F Q ++KDLG D++ + K + VG A A+ ++++ NLRLV+
Sbjct: 353 AFQQKIADIEKDLGLNVKDIK----------DISKRMAVGEAKARRAKKEMVEANLRLVI 402
Query: 289 FVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTV 348
+ KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 403 SIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 459
Query: 349 SSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKA 407
+ T R+P + ++ +I R +LL E+ R PT EE+ + + + + R+V+K
Sbjct: 460 QARTIRIPVHM-----IETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKI 514
Query: 408 SKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKE 461
+K +S+ + G ++ + D +E+ N P L+ A +VL++L +E
Sbjct: 515 AKEPISMETPIGDDEDSHLG-----DFIEDSNITSPVDAATSEGLKEATREVLENLTERE 569
Query: 462 SLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+ V++ RFG+D D TL E+ +++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 570 AKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 625
>gi|387121505|ref|YP_006287388.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans D7S-1]
gi|415754433|ref|ZP_11480649.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans D17P-3]
gi|416035201|ref|ZP_11573485.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype a str. H5P1]
gi|416043829|ref|ZP_11574790.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype d str. I63B]
gi|416066326|ref|ZP_11581993.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans serotype f str. D18P1]
gi|429733420|ref|ZP_19267640.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans Y4]
gi|347996821|gb|EGY37873.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype d str. I63B]
gi|347997500|gb|EGY38491.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype a str. H5P1]
gi|348002922|gb|EGY43585.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans serotype f str. D18P1]
gi|348656216|gb|EGY71613.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans D17P-3]
gi|385875997|gb|AFI87556.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans D7S-1]
gi|429154897|gb|EKX97606.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans Y4]
Length = 616
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLVQYENQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|418464176|ref|ZP_13035117.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans RhAA1]
gi|359757356|gb|EHK91511.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans RhAA1]
Length = 616
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TADTWLVKALSAGKSWSEKLVQYESQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|416077262|ref|ZP_11585806.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. SCC1398]
gi|444338461|ref|ZP_21152296.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. SCC4092]
gi|348004059|gb|EGY44590.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. SCC1398]
gi|443545019|gb|ELT54889.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. SCC4092]
Length = 616
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLVQYENQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|340000732|ref|YP_004731616.1| RNA polymerase sigma-70 factor [Salmonella bongori NCTC 12419]
gi|339514094|emb|CCC31857.1| RNA polymerase sigma-70 factor [Salmonella bongori NCTC 12419]
Length = 660
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|270263179|ref|ZP_06191449.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13]
gi|333929232|ref|YP_004502811.1| RNA polymerase sigma-70 subunit RpoD [Serratia sp. AS12]
gi|333934185|ref|YP_004507763.1| RNA polymerase sigma-70 subunit RpoD [Serratia plymuthica AS9]
gi|386331055|ref|YP_006027225.1| RNA polymerase sigma-70 subunit RpoD [Serratia sp. AS13]
gi|270042867|gb|EFA15961.1| RNA polymerase sigma factor RpoD [Serratia odorifera 4Rx13]
gi|333475792|gb|AEF47502.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia plymuthica AS9]
gi|333493292|gb|AEF52454.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia sp. AS12]
gi|333963388|gb|AEG30161.1| RNA polymerase, sigma 70 subunit, RpoD [Serratia sp. AS13]
Length = 648
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T ++W + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 344 NETSNSWFEAALAMAKPWSEKLKDVTDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 403
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 404 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 460
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 461 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 515
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 516 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 574
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 575 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 629
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 630 LRKLRHPSRSEVLRSFL 646
>gi|256832655|ref|YP_003161382.1| RpoD subfamily RNA polymerase sigma-70 subunit [Jonesia
denitrificans DSM 20603]
gi|256686186|gb|ACV09079.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Jonesia
denitrificans DSM 20603]
Length = 504
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/248 (35%), Positives = 143/248 (57%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+ + ++ S
Sbjct: 264 GKRAKNHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFS 320
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 321 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 375
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + V + LL+
Sbjct: 376 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQ 435
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 436 LHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 495
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 496 SQVLRDYL 503
>gi|261342495|ref|ZP_05970353.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC
35316]
gi|288315137|gb|EFC54075.1| RNA polymerase sigma factor RpoD [Enterobacter cancerogenus ATCC
35316]
Length = 614
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + ++ D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVKDDVHRGLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|123443868|ref|YP_001007839.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
enterocolitica 8081]
gi|420260054|ref|ZP_14762743.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
enterocolitica WA-314]
gi|122090829|emb|CAL13711.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
enterocolitica 8081]
gi|404512463|gb|EKA26309.1| RNA polymerase sigma factor RpoD [Yersinia enterocolitica subsp.
enterocolitica WA-314]
Length = 612
Score = 141 bits (355), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|1519634|gb|AAC44891.1| sigma 70-type sigma factor SigA [Rhodobacter sphaeroides]
Length = 666
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/262 (35%), Positives = 146/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 417 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 473
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 474 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 528
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + + E+ R+VMK +K +SL + G ++ +FI N I +D
Sbjct: 529 REPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSA 588
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 589 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERLRQ 642
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 643 IEAKALRKLKHPSRSRKLRSFL 664
>gi|384227506|ref|YP_005619251.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Ak
(Acyrthosiphon kondoi)]
gi|345538446|gb|AEO08423.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. Ak
(Acyrthosiphon kondoi)]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/281 (33%), Positives = 157/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVK---KCLEVG----RAARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGESKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 455
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G +
Sbjct: 456 IETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDD 515
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 516 SHLGDFIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTD 569
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 570 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>gi|304396867|ref|ZP_07378747.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB]
gi|440757198|ref|ZP_20936387.1| RNA polymerase sigma factor RpoD [Pantoea agglomerans 299R]
gi|304355663|gb|EFM20030.1| RNA polymerase, sigma 70 subunit, RpoD [Pantoea sp. aB]
gi|436429025|gb|ELP26673.1| RNA polymerase sigma factor RpoD [Pantoea agglomerans 299R]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + ++Q D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETNESWFKAALAMNKPWSEKLLEVQDDVMRSLQKLAQVEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|62181728|ref|YP_218145.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Choleraesuis str. SC-B67]
gi|375116068|ref|ZP_09761238.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Choleraesuis str. SCSA50]
gi|62129361|gb|AAX67064.1| sigma D (sigma 70) factor of RNA polymerase, major sigma factor
during exponential growth [Salmonella enterica subsp.
enterica serovar Choleraesuis str. SC-B67]
gi|322716214|gb|EFZ07785.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Choleraesuis str. SCSA50]
Length = 658
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 391 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 447
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 448 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 502
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 503 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 562
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 563 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 616
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 617 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 656
>gi|37527834|ref|NP_931179.1| RNA polymerase sigma factor RpoD [Photorhabdus luminescens subsp.
laumondii TTO1]
gi|36787270|emb|CAE16351.1| RNA polymerase sigma factor rpoD (Sigma-70) [Photorhabdus
luminescens subsp. laumondii TTO1]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/299 (31%), Positives = 167/299 (55%), Gaps = 32/299 (10%)
Query: 234 FVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRL 286
++V++++Q+ L + ++ E T ++ QVK + +G A A+ ++++ NLRL
Sbjct: 331 LLEVEDEVQRSLQKLR---QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRL 387
Query: 287 VLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSM 346
V+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 388 VISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 444
Query: 347 TVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVM 405
+ T R+P + ++ ++ R ++L E+ R PT EE+ + + + ++ R+V+
Sbjct: 445 ADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVL 499
Query: 406 KASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLK 458
K +K +S+ + G ++ +FI T +D +E+ LR A DVL L
Sbjct: 500 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES------LRSATHDVLAGLT 553
Query: 459 PKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 554 AREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 612
>gi|403013|emb|CAA50594.1| major sigma factor [Lactococcus lactis]
Length = 340
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 96/277 (34%), Positives = 154/277 (55%), Gaps = 12/277 (4%)
Query: 243 KDLGREPTDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
K++GR P + L E T ++ A + E A+ L + NLRLV+ + K+Y G
Sbjct: 74 KEIGRYPL-ISLDEETKLAEAIIAGG-EGAEFAKQMLAEANLRLVVSIAKRYS---GRGM 128
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
+F DL Q G GL+ A+D+F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 129 QFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 188
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR LL EL R P+ EEI + ++++P++ REV+K ++ +SL + G
Sbjct: 189 INKLIR--VQR---NLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEE 243
Query: 422 QEEFINGITDVDGVENE-NQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + + D +E+ + LLR LD+V+D+L +E V+R RFGLD TL
Sbjct: 244 DDSHLGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLE 303
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++ ++RE +R+ E K + KL+HP R LR M
Sbjct: 304 DVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 340
>gi|82778397|ref|YP_404746.1| RNA polymerase sigma factor RpoD [Shigella dysenteriae Sd197]
gi|309785377|ref|ZP_07680008.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617]
gi|81242545|gb|ABB63255.1| RNA polymerase, sigma(70) factor [Shigella dysenteriae Sd197]
gi|308926497|gb|EFP71973.1| RNA polymerase sigma factor rpoD [Shigella dysenteriae 1617]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/281 (32%), Positives = 156/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 345 LQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 401
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 402 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 456
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 457 IETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDED 516
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 517 SHLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTD 570
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 571 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 611
>gi|407368259|ref|ZP_11114791.1| RNA polymerase sigma factor RpoD [Pseudomonas mandelii JR-1]
Length = 616
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIIRCQQKLTALQTETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|387772261|ref|ZP_10128215.1| RNA polymerase sigma factor RpoD [Haemophilus parahaemolyticus
HK385]
gi|386907410|gb|EIJ72123.1| RNA polymerase sigma factor RpoD [Haemophilus parahaemolyticus
HK385]
Length = 623
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/253 (33%), Positives = 145/253 (57%), Gaps = 20/253 (7%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 382 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 438
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E+ R T EE+
Sbjct: 439 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQCLQEMGREATPEEL 493
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ +N+ ++ R+V+K +K +S+ + G + + D +++E+ P
Sbjct: 494 AERMNMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIQDESLELPLDSATAE 548
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
LR+A ++VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL
Sbjct: 549 SLRIATNEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL 608
Query: 505 KHPTRVDYLRQHM 517
+HP+R + LR +
Sbjct: 609 RHPSRSETLRSFL 621
>gi|374314300|ref|YP_005060729.1| RNA polymerase major s factor [Serratia symbiotica str. 'Cinara
cedri']
gi|363988526|gb|AEW44717.1| RNA polymerase major s factor [Serratia symbiotica str. 'Cinara
cedri']
Length = 627
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/280 (33%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
E+ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 360 EIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 416
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 417 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 471
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R P EE+ + +S ++ R+V+K +K +S+ + G ++
Sbjct: 472 ETINKLNRISRQMLQEMGREPMPEELAARMLMSEDKIRKVLKIAKEPISMETPIGDDEDS 531
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 532 HLGDFIEDTTLELPLDSATSES------LRSATHDVLAGLTAREAKVLRMRFGIDMNTDH 585
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 586 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 625
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/319 (30%), Positives = 174/319 (54%), Gaps = 11/319 (3%)
Query: 199 STDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEAT 258
+ D V +K+M P+L++TE L + +Q + +V+++LQ++L R PT ELA A
Sbjct: 43 ADDPVGALFKEMARYPLLTATEEVELARRVQELVALDEVEQRLQQELDRVPTKAELAAAL 102
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
+S Q+++ ++A+ K+I NLRLV+ + K+Y G F DL Q G GL A
Sbjct: 103 GISETQLQQLRHQCQSAKRKMISSNLRLVVSIAKRYLN---RGVPFLDLIQEGALGLNRA 159
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
++F+P++ ++ STY +WIR I R++ T R+P I++ ++++ +L
Sbjct: 160 AEKFDPEKGYKFSTYAYWWIRQGITRTIANQGRTIRLP-----VHIVEQLNKLKKVYRDL 214
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQ-EEFINGITDVDGVE 436
L+R PT+ E+ + + ++ E+ R + + + LSL+ R G + E ++ + D
Sbjct: 215 RRSLQRNPTETELAREMQVTCEQLRYLQQVRRQSLSLNHRIGSEESSELLDVLEDNATQS 274
Query: 437 NENQRQPALLRLALDDVLDS-LKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
E Q ++R + +VLDS L +E ++ R+GL TL E++ N+SRE VR+
Sbjct: 275 PEAQMNEMMMRQDILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQ 334
Query: 496 HEVKGLMKLKHPTRVDYLR 514
+ K + KL+ P + L+
Sbjct: 335 IQNKAMRKLRRPQVTERLK 353
>gi|238794325|ref|ZP_04637937.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909]
gi|238726319|gb|EEQ17861.1| RNA polymerase sigma factor rpoD [Yersinia intermedia ATCC 29909]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|188532569|ref|YP_001906366.1| RNA polymerase sigma factor RpoD [Erwinia tasmaniensis Et1/99]
gi|188027611|emb|CAO95461.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia tasmaniensis
Et1/99]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + +D+ R ++ + E T ++ QVK + +G
Sbjct: 309 NETNETWFKAALAMNKPWSEKLNDVSEDVTRGLQKLQQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 107/337 (31%), Positives = 179/337 (53%), Gaps = 38/337 (11%)
Query: 184 DEHEKIEKLVREYSYSTDLVSLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQK 243
D+ E +++L++ DL L +PP + K+ P+++++ K
Sbjct: 82 DDEEHLDRLMKPTEDKFDLNDL-----SVPPGV---------KINDPVRMYL-------K 120
Query: 244 DLGREPTDVELAEATNMSAAQVKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGP 302
++GR V+L +A ++ K +E G A+ +L + NLRLV+ + K+Y G
Sbjct: 121 EIGR----VDLLKAEE--EVRLAKLIEQGDEEAKKRLAEANLRLVVSIAKRYV---GRGM 171
Query: 303 RFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLEST 361
F DL Q G GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T
Sbjct: 172 LFLDLIQEGNMGLIKAVEKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 231
Query: 362 SIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVT 421
+R +QR +LL +L R P+ EEI + +++ PE+ RE++K ++ +SL + G
Sbjct: 232 INKLIR--VQR---QLLQDLGRDPSPEEIGEEMDLLPEKVREILKIAQEPVSLETPIGEE 286
Query: 422 QEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLG 480
+ + I D D + LL+ L+DVLD+L +E V+R RFGLD RTL
Sbjct: 287 DDSHLGDFIEDSDAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLE 346
Query: 481 EIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
E+ ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 347 EVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 383
>gi|254464472|ref|ZP_05077883.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I]
gi|206685380|gb|EDZ45862.1| Sigma-70 region 3 family [Rhodobacterales bacterium Y4I]
Length = 662
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/262 (35%), Positives = 145/262 (55%), Gaps = 22/262 (8%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K + R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 413 QVQKGEKEARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 469
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+
Sbjct: 470 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTGRQMLHEIG 524
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGV 435
R PT EE+ + + E+ R+VMK +K +SL + G ++ +FI N + +D
Sbjct: 525 REPTPEELADKLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSA 584
Query: 436 ENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRK 495
EN L+ VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 585 IQEN------LKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQ 638
Query: 496 HEVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 639 IEAKALRKLKHPSRSRKLRSFL 660
>gi|51597716|ref|YP_071907.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP
32953]
gi|108809138|ref|YP_653054.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua]
gi|108810668|ref|YP_646435.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516]
gi|150260325|ref|ZP_01917053.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125]
gi|153950753|ref|YP_001399546.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP
31758]
gi|165924959|ref|ZP_02220791.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. F1991016]
gi|165937882|ref|ZP_02226443.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. IP275]
gi|166008817|ref|ZP_02229715.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. E1979001]
gi|166212040|ref|ZP_02238075.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. B42003004]
gi|167399605|ref|ZP_02305129.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. UG05-0454]
gi|167419320|ref|ZP_02311073.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. MG05-1020]
gi|167425120|ref|ZP_02316873.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar
Mediaevalis str. K1973002]
gi|170022885|ref|YP_001719390.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis
YPIII]
gi|186896860|ref|YP_001873972.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis
PB1/+]
gi|218927836|ref|YP_002345711.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92]
gi|229837321|ref|ZP_04457484.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis
Pestoides A]
gi|229840533|ref|ZP_04460692.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar
Orientalis str. PEXU2]
gi|229842919|ref|ZP_04463070.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar
Orientalis str. India 195]
gi|229900861|ref|ZP_04515985.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis
Nepal516]
gi|294502714|ref|YP_003566776.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003]
gi|384121147|ref|YP_005503767.1| RNA polymerase sigma factor RpoD [Yersinia pestis D106004]
gi|384137370|ref|YP_005520072.1| RNA polymerase sigma factor RpoD [Yersinia pestis A1122]
gi|384416294|ref|YP_005625656.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis
str. Harbin 35]
gi|420545137|ref|ZP_15043298.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-01]
gi|420550459|ref|ZP_15048053.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-02]
gi|420555908|ref|ZP_15052904.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-03]
gi|420561592|ref|ZP_15057856.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-04]
gi|420566581|ref|ZP_15062363.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-05]
gi|420572257|ref|ZP_15067516.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-06]
gi|420577533|ref|ZP_15072283.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-07]
gi|420582938|ref|ZP_15077210.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-08]
gi|420588043|ref|ZP_15081812.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-09]
gi|420593368|ref|ZP_15086608.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-10]
gi|420599046|ref|ZP_15091692.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-11]
gi|420604605|ref|ZP_15096656.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-12]
gi|420609909|ref|ZP_15101468.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-13]
gi|420615167|ref|ZP_15106141.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-14]
gi|420620630|ref|ZP_15110920.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-15]
gi|420625643|ref|ZP_15115462.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-16]
gi|420630805|ref|ZP_15120148.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-19]
gi|420635985|ref|ZP_15124775.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-25]
gi|420641576|ref|ZP_15129822.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-29]
gi|420645734|ref|ZP_15133639.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-32]
gi|420646671|ref|ZP_15134487.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-32]
gi|420652359|ref|ZP_15139592.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-34]
gi|420657805|ref|ZP_15144501.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-36]
gi|420663139|ref|ZP_15149264.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-42]
gi|420668188|ref|ZP_15153835.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-45]
gi|420673425|ref|ZP_15158597.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-46]
gi|420678934|ref|ZP_15163605.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-47]
gi|420684161|ref|ZP_15168306.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-48]
gi|420689373|ref|ZP_15172932.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-52]
gi|420695170|ref|ZP_15177999.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-53]
gi|420700448|ref|ZP_15182584.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-54]
gi|420706579|ref|ZP_15187474.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-55]
gi|420711871|ref|ZP_15192266.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-56]
gi|420717235|ref|ZP_15197011.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-58]
gi|420722874|ref|ZP_15201825.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-59]
gi|420728515|ref|ZP_15206843.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-60]
gi|420733623|ref|ZP_15211443.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-61]
gi|420742814|ref|ZP_15219723.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-63]
gi|420744309|ref|ZP_15221025.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-64]
gi|420750219|ref|ZP_15226022.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-65]
gi|420755311|ref|ZP_15230537.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-66]
gi|420761344|ref|ZP_15235363.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-71]
gi|420766547|ref|ZP_15240071.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-72]
gi|420771565|ref|ZP_15244566.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-76]
gi|420776906|ref|ZP_15249377.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-88]
gi|420782396|ref|ZP_15254188.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-89]
gi|420787810|ref|ZP_15258944.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-90]
gi|420793284|ref|ZP_15263875.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-91]
gi|420798438|ref|ZP_15268504.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-92]
gi|420803807|ref|ZP_15273341.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-93]
gi|420808997|ref|ZP_15278038.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-94]
gi|420814754|ref|ZP_15283195.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-95]
gi|420819937|ref|ZP_15287890.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-96]
gi|420825005|ref|ZP_15292428.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-98]
gi|420830798|ref|ZP_15297652.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-99]
gi|420835598|ref|ZP_15301985.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-100]
gi|420840769|ref|ZP_15306670.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-101]
gi|420846360|ref|ZP_15311728.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-102]
gi|420851717|ref|ZP_15316486.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-103]
gi|420857281|ref|ZP_15321187.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-113]
gi|421762074|ref|ZP_16198873.1| RNA polymerase sigma factor RpoD [Yersinia pestis INS]
gi|51590998|emb|CAH22656.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP
32953]
gi|108774316|gb|ABG16835.1| RNA polymerase sigma factor RpoD [Yersinia pestis Nepal516]
gi|108781051|gb|ABG15109.1| RNA polymerase sigma factor RpoD [Yersinia pestis Antiqua]
gi|115346447|emb|CAL19320.1| RNA polymerase sigma factor RpoD [Yersinia pestis CO92]
gi|149289733|gb|EDM39810.1| RNA polymerase sigma factor RpoD [Yersinia pestis CA88-4125]
gi|152962248|gb|ABS49709.1| RNA polymerase sigma factor RpoD [Yersinia pseudotuberculosis IP
31758]
gi|165914294|gb|EDR32910.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. IP275]
gi|165923159|gb|EDR40310.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. F1991016]
gi|165992156|gb|EDR44457.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. E1979001]
gi|166206786|gb|EDR51266.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. B42003004]
gi|166963314|gb|EDR59335.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Orientalis
str. MG05-1020]
gi|167052109|gb|EDR63517.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Antiqua
str. UG05-0454]
gi|167055883|gb|EDR65664.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar
Mediaevalis str. K1973002]
gi|169749419|gb|ACA66937.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis
YPIII]
gi|186699886|gb|ACC90515.1| RNA polymerase, sigma 70 subunit, RpoD [Yersinia pseudotuberculosis
PB1/+]
gi|229682200|gb|EEO78292.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis
Nepal516]
gi|229689985|gb|EEO82043.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar
Orientalis str. India 195]
gi|229696899|gb|EEO86946.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis biovar
Orientalis str. PEXU2]
gi|229705444|gb|EEO91454.1| RNA polymerase, sigma 70 (sigma D) factor [Yersinia pestis
Pestoides A]
gi|262360743|gb|ACY57464.1| RNA polymerase sigma factor RpoD [Yersinia pestis D106004]
gi|294353173|gb|ADE63514.1| RNA polymerase sigma factor RpoD [Yersinia pestis Z176003]
gi|320016798|gb|ADW00370.1| RNA polymerase sigma factor RpoD [Yersinia pestis biovar Medievalis
str. Harbin 35]
gi|342852499|gb|AEL71052.1| RNA polymerase sigma factor RpoD [Yersinia pestis A1122]
gi|391431789|gb|EIQ93302.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-01]
gi|391432834|gb|EIQ94237.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-02]
gi|391435491|gb|EIQ96543.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-03]
gi|391447728|gb|EIR07610.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-04]
gi|391448734|gb|EIR08518.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-05]
gi|391451400|gb|EIR10898.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-06]
gi|391464064|gb|EIR22399.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-07]
gi|391465468|gb|EIR23662.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-08]
gi|391467540|gb|EIR25511.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-09]
gi|391480808|gb|EIR37410.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-10]
gi|391481664|gb|EIR38175.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-11]
gi|391481894|gb|EIR38386.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-12]
gi|391496213|gb|EIR51190.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-13]
gi|391496689|gb|EIR51608.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-15]
gi|391500261|gb|EIR54783.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-14]
gi|391511814|gb|EIR65185.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-16]
gi|391513573|gb|EIR66776.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-19]
gi|391515669|gb|EIR68635.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-25]
gi|391527286|gb|EIR79209.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-29]
gi|391530172|gb|EIR81781.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-34]
gi|391531336|gb|EIR82835.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-32]
gi|391533909|gb|EIR85147.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-32]
gi|391544361|gb|EIR94588.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-36]
gi|391545951|gb|EIR95986.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-42]
gi|391546747|gb|EIR96708.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-45]
gi|391560552|gb|EIS09166.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-46]
gi|391561742|gb|EIS10244.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-47]
gi|391563756|gb|EIS12029.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-48]
gi|391575940|gb|EIS22578.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-52]
gi|391576638|gb|EIS23167.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-53]
gi|391588175|gb|EIS33247.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-55]
gi|391590602|gb|EIS35302.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-54]
gi|391591865|gb|EIS36378.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-56]
gi|391605108|gb|EIS48034.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-60]
gi|391606483|gb|EIS49210.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-58]
gi|391607350|gb|EIS49958.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-59]
gi|391609965|gb|EIS52310.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-63]
gi|391619331|gb|EIS60607.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-61]
gi|391628485|gb|EIS68557.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-64]
gi|391630913|gb|EIS70606.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-65]
gi|391642186|gb|EIS80491.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-71]
gi|391644910|gb|EIS82854.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-72]
gi|391647145|gb|EIS84808.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-66]
gi|391654695|gb|EIS91510.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-76]
gi|391661397|gb|EIS97446.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-88]
gi|391666310|gb|EIT01794.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-89]
gi|391668155|gb|EIT03416.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-90]
gi|391672553|gb|EIT07356.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-91]
gi|391685839|gb|EIT19327.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-93]
gi|391687304|gb|EIT20634.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-92]
gi|391688459|gb|EIT21669.1| RNA polymerase sigma factor RpoD [Yersinia pestis PY-94]
gi|391700021|gb|EIT32153.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-95]
gi|391703361|gb|EIT35131.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-96]
gi|391704174|gb|EIT35853.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-98]
gi|391714224|gb|EIT44901.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-99]
gi|391719819|gb|EIT49891.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-100]
gi|391720252|gb|EIT50291.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-101]
gi|391730936|gb|EIT59698.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-102]
gi|391733427|gb|EIT61814.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-103]
gi|391737020|gb|EIT64946.1| RNA polymerase sigma factor rpoD [Yersinia pestis PY-113]
gi|411177615|gb|EKS47628.1| RNA polymerase sigma factor RpoD [Yersinia pestis INS]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|416894492|ref|ZP_11925080.1| RNA polymerase sigma factor RpoD [Aggregatibacter aphrophilus ATCC
33389]
gi|347813454|gb|EGY30127.1| RNA polymerase sigma factor RpoD [Aggregatibacter aphrophilus ATCC
33389]
Length = 623
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 168/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + DL + + V++ + T+++ Q+++ E
Sbjct: 321 TTDTWLIKALGAGKAWSEKLVQYENDLRQAIANLVQIEQDTHLTIQQIREICERIAQGEL 380
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 381 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 437
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R + EE
Sbjct: 438 STYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREASPEE 492
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 493 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATA 547
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 548 QSLKAATHEVLEGLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 607
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 608 LRHPSRSETLRSFL 621
>gi|145597737|ref|YP_001161813.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F]
gi|145209433|gb|ABP38840.1| RNA polymerase sigma factor RpoD [Yersinia pestis Pestoides F]
Length = 608
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 304 NETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 363
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 364 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 420
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 421 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 475
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 476 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLKLPLDSATSES- 534
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 535 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 589
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 590 LRKLRHPSRSEVLRSFL 606
>gi|402758142|ref|ZP_10860398.1| rpoD [Acinetobacter sp. NCTC 7422]
Length = 627
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/296 (31%), Positives = 160/296 (54%), Gaps = 34/296 (11%)
Query: 233 VFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA----ARNKLIKHNLRLVL 288
F Q ++KDLG D++ + K + VG A A+ ++++ NLRLV+
Sbjct: 352 AFQQKIADIEKDLGLNVKDIK----------DISKRMAVGEAKARRAKKEMVEANLRLVI 401
Query: 289 FVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTV 348
+ KKY G +F DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+
Sbjct: 402 SIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 458
Query: 349 SSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKA 407
+ T R+P +++ +I R +LL E+ R PT EE+ + + + + R+V+K
Sbjct: 459 QARTIRIP-----VHMIETINKINRVSRQLLQEMGREPTPEELGERLEMDEVKVRKVLKI 513
Query: 408 SKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLRLALDDVLDSLKPKE 461
+K +S+ + G ++ + D +E+ N P L+ A +VL++L +E
Sbjct: 514 AKEPISMETPIGDDEDSHLG-----DFIEDSNITSPVDAATSEGLKEATREVLENLTERE 568
Query: 462 SLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
+ V++ RFG+D D TL E+ +++RE +R+ E K L KL+HP+R ++LR +
Sbjct: 569 AKVLKMRFGIDMPTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFL 624
>gi|365967986|ref|YP_004949548.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans ANH9381]
gi|416081183|ref|ZP_11586382.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. I23C]
gi|444347701|ref|ZP_21155532.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. S23A]
gi|348011098|gb|EGY51085.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. I23C]
gi|365746899|gb|AEW77804.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans ANH9381]
gi|443548345|gb|ELT57617.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype b str. S23A]
Length = 616
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLVQYENQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|384225867|ref|YP_005617030.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. TLW03
(Acyrthosiphon pisum)]
gi|384226923|ref|YP_005618673.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LL01
(Acyrthosiphon pisum)]
gi|311085799|gb|ADP65881.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. LL01
(Acyrthosiphon pisum)]
gi|311086374|gb|ADP66455.1| RNA polymerase sigma factor RpoD [Buchnera aphidicola str. TLW03
(Acyrthosiphon pisum)]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/281 (33%), Positives = 157/281 (55%), Gaps = 29/281 (10%)
Query: 252 VELAEATNMSAAQVK---KCLEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRF 304
+++ E T ++ QVK K + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 344 IKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQF 400
Query: 305 QDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSI 363
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P +
Sbjct: 401 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM----- 455
Query: 364 MQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE 423
++ ++ R ++L E+ R PT EE+ + + I ++ R+V+K +K +S+ + G +
Sbjct: 456 IETINKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDD 515
Query: 424 ----EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGD 476
+FI T +D +E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 516 SHLGDFIEDTTLELPLDSATSES------LRSATHDVLSGLTAREAKVLRMRFGIDMNTD 569
Query: 477 RTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 570 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 610
>gi|261820103|ref|YP_003258209.1| RNA polymerase sigma factor RpoD [Pectobacterium wasabiae WPP163]
gi|421081028|ref|ZP_15541942.1| RNA polymerase sigma factor RpoD [Pectobacterium wasabiae CFBP
3304]
gi|261604116|gb|ACX86602.1| RNA polymerase, sigma 70 subunit, RpoD [Pectobacterium wasabiae
WPP163]
gi|401704038|gb|EJS94247.1| RNA polymerase sigma factor RpoD [Pectobacterium wasabiae CFBP
3304]
Length = 611
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 172/317 (54%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T ++W + K + + +++D+ R ++ + E T ++ QVK + +G
Sbjct: 307 NETNNSWFAAAVAMGKPWSEKLNDVEEDVTRSLQKLQQIEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>gi|238760057|ref|ZP_04621208.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236]
gi|238701744|gb|EEP94310.1| RNA polymerase sigma factor rpoD [Yersinia aldovae ATCC 35236]
Length = 611
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 307 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 366
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 367 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 423
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 424 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 478
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 479 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 537
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 538 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 592
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 593 LRKLRHPSRSEVLRSFL 609
>gi|323493625|ref|ZP_08098746.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546]
gi|323312148|gb|EGA65291.1| RNA polymerase sigma factor RpoD [Vibrio brasiliensis LMG 20546]
Length = 617
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/310 (29%), Positives = 168/310 (54%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVGRA---- 274
WL +++ K + + + + D+ R ++ + E T+++ +K + +G A
Sbjct: 319 WLDEILASDKPYAEKIRRSEDDIRRSIAKLKVIEEETSLTVQNIKDISRRMSIGEAKARR 378
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 379 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 435
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P EE+ +
Sbjct: 436 TWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLPEELAER 490
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ P L+
Sbjct: 491 MQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSATATSLK 545
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
+A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 546 VATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 605
Query: 508 TRVDYLRQHM 517
+R + LR +
Sbjct: 606 SRSETLRSFL 615
>gi|39546362|ref|NP_462126.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. LT2]
gi|161616204|ref|YP_001590169.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Paratyphi B str. SPB7]
gi|167551873|ref|ZP_02345626.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Saintpaul str. SARA29]
gi|167990234|ref|ZP_02571334.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar 4,[5],12:i:- str. CVM23701]
gi|168237909|ref|ZP_02662967.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Schwarzengrund str. SL480]
gi|168243042|ref|ZP_02667974.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. SL486]
gi|168262827|ref|ZP_02684800.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Hadar str. RI_05P066]
gi|168463576|ref|ZP_02697493.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. SL317]
gi|194445988|ref|YP_002042478.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. SL254]
gi|194451693|ref|YP_002047209.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. SL476]
gi|194472915|ref|ZP_03078899.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Kentucky str. CVM29188]
gi|194736124|ref|YP_002116168.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Schwarzengrund str. CVM19633]
gi|197251872|ref|YP_002148141.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SL483]
gi|197264102|ref|ZP_03164176.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Saintpaul str. SARA23]
gi|198242489|ref|YP_002217192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. CT_02021853]
gi|200389116|ref|ZP_03215728.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Virchow str. SL491]
gi|204928094|ref|ZP_03219294.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Javiana str. GA_MM04042433]
gi|207858469|ref|YP_002245120.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. P125109]
gi|213425630|ref|ZP_03358380.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. E02-1180]
gi|213586893|ref|ZP_03368719.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. E98-0664]
gi|213646106|ref|ZP_03376159.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. J185]
gi|213865054|ref|ZP_03387173.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. M223]
gi|238910014|ref|ZP_04653851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Tennessee str. CDC07-0191]
gi|374979234|ref|ZP_09720573.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. TN061786]
gi|378701116|ref|YP_005183073.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. SL1344]
gi|378956833|ref|YP_005214320.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Gallinarum/pullorum str. RKS5078]
gi|378961310|ref|YP_005218796.1| RNA polymerase sigma factor rpoD [Salmonella enterica subsp.
enterica serovar Typhi str. P-stx-12]
gi|378985810|ref|YP_005248966.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. T000240]
gi|383497870|ref|YP_005398559.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. 798]
gi|386592907|ref|YP_006089307.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. B182]
gi|409994562|ref|NP_806814.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. Ty2]
gi|416507097|ref|ZP_11735130.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. SARB31]
gi|416515950|ref|ZP_11738900.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. ATCC BAA710]
gi|416527058|ref|ZP_11742896.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. LQC 10]
gi|416534010|ref|ZP_11746828.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. SARB30]
gi|416549743|ref|ZP_11755586.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 29N]
gi|416557454|ref|ZP_11759531.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 42N]
gi|416568407|ref|ZP_11764759.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 4441 H]
gi|418514564|ref|ZP_13080764.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Pomona str. ATCC 10729]
gi|418760988|ref|ZP_13317140.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35185]
gi|418766025|ref|ZP_13322104.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35199]
gi|418771351|ref|ZP_13327358.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21539]
gi|418773881|ref|ZP_13329854.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 33953]
gi|418778313|ref|ZP_13334223.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35188]
gi|418783509|ref|ZP_13339356.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21559]
gi|418788635|ref|ZP_13344428.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19447]
gi|418794325|ref|ZP_13350046.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19449]
gi|418797525|ref|ZP_13353211.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19567]
gi|418801894|ref|ZP_13357526.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35202]
gi|418806427|ref|ZP_13361999.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21550]
gi|418810587|ref|ZP_13366127.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22513]
gi|418818203|ref|ZP_13373682.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21538]
gi|418823271|ref|ZP_13378680.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22425]
gi|418826732|ref|ZP_13381926.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22462]
gi|418831165|ref|ZP_13386123.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM N18486]
gi|418837102|ref|ZP_13391977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM N1543]
gi|418842364|ref|ZP_13397174.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21554]
gi|418846941|ref|ZP_13401706.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19443]
gi|418847831|ref|ZP_13402571.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 37978]
gi|418855995|ref|ZP_13410643.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19593]
gi|418857758|ref|ZP_13412383.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19470]
gi|418862767|ref|ZP_13417306.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19536]
gi|418869570|ref|ZP_13424003.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 4176]
gi|419731466|ref|ZP_14258379.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41579]
gi|419735921|ref|ZP_14262794.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41563]
gi|419739690|ref|ZP_14266435.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41573]
gi|419742086|ref|ZP_14268764.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41566]
gi|419748917|ref|ZP_14275407.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41565]
gi|419786851|ref|ZP_14312566.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. Levine 1]
gi|419793243|ref|ZP_14318866.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. Levine 15]
gi|421360800|ref|ZP_15811076.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 622731-39]
gi|421363574|ref|ZP_15813816.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639016-6]
gi|421369897|ref|ZP_15820072.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 640631]
gi|421374341|ref|ZP_15824472.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-0424]
gi|421383609|ref|ZP_15833647.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 485549-17]
gi|421384745|ref|ZP_15834768.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 596866-22]
gi|421389613|ref|ZP_15839596.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 596866-70]
gi|421396899|ref|ZP_15846824.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629164-26]
gi|421399678|ref|ZP_15849573.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629164-37]
gi|421405833|ref|ZP_15855658.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639672-46]
gi|421408640|ref|ZP_15858439.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639672-50]
gi|421414730|ref|ZP_15864466.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-1427]
gi|421417668|ref|ZP_15867378.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-2659]
gi|421421006|ref|ZP_15870682.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 78-1757]
gi|421428652|ref|ZP_15878263.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22510-1]
gi|421435476|ref|ZP_15885012.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648905 5-18]
gi|421439899|ref|ZP_15889379.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 6-18]
gi|421444043|ref|ZP_15893482.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 50-3079]
gi|421449516|ref|ZP_15898900.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 58-6482]
gi|421573093|ref|ZP_16018738.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00322]
gi|421577073|ref|ZP_16022663.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00325]
gi|421579571|ref|ZP_16025134.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00326]
gi|421583423|ref|ZP_16028947.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00328]
gi|422027434|ref|ZP_16373776.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm1]
gi|422032472|ref|ZP_16378584.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm2]
gi|423141745|ref|ZP_17129383.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
houtenae str. ATCC BAA-1581]
gi|427554172|ref|ZP_18929074.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm8]
gi|427571814|ref|ZP_18933789.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm9]
gi|427592498|ref|ZP_18938588.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm3]
gi|427616324|ref|ZP_18943480.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm4]
gi|427639980|ref|ZP_18948358.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm6]
gi|427657451|ref|ZP_18953103.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm10]
gi|427662767|ref|ZP_18958068.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm11]
gi|427676650|ref|ZP_18962883.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm12]
gi|427800480|ref|ZP_18968231.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm5]
gi|436602306|ref|ZP_20513126.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22704]
gi|436747625|ref|ZP_20520041.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE30663]
gi|436799873|ref|ZP_20524159.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CHS44]
gi|436807275|ref|ZP_20527318.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1882]
gi|436818166|ref|ZP_20534799.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1884]
gi|436832389|ref|ZP_20536679.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1594]
gi|436853265|ref|ZP_20543290.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1566]
gi|436860948|ref|ZP_20548132.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1580]
gi|436867824|ref|ZP_20552978.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1543]
gi|436873169|ref|ZP_20556051.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1441]
gi|436880161|ref|ZP_20559920.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1810]
gi|436891794|ref|ZP_20566494.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1558]
gi|436899300|ref|ZP_20570711.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1018]
gi|436902811|ref|ZP_20573275.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1010]
gi|436915106|ref|ZP_20579953.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1729]
gi|436919805|ref|ZP_20582586.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0895]
gi|436929097|ref|ZP_20588303.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0899]
gi|436938290|ref|ZP_20593077.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1457]
gi|436946149|ref|ZP_20597977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1747]
gi|436955612|ref|ZP_20602487.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0968]
gi|436966344|ref|ZP_20607013.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1444]
gi|436970435|ref|ZP_20608965.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1445]
gi|436979907|ref|ZP_20613052.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1559]
gi|436993685|ref|ZP_20618478.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1565]
gi|437009448|ref|ZP_20623825.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1808]
gi|437022589|ref|ZP_20628538.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1811]
gi|437028542|ref|ZP_20630634.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0956]
gi|437042811|ref|ZP_20636324.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1455]
gi|437050486|ref|ZP_20640631.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1575]
gi|437061718|ref|ZP_20647084.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1725]
gi|437066634|ref|ZP_20649696.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1745]
gi|437074141|ref|ZP_20653583.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1791]
gi|437083225|ref|ZP_20658968.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1795]
gi|437097967|ref|ZP_20665422.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 576709]
gi|437110752|ref|ZP_20668098.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 635290-58]
gi|437124989|ref|ZP_20673737.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-16]
gi|437129710|ref|ZP_20676186.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-19]
gi|437146339|ref|ZP_20686128.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-9]
gi|437159671|ref|ZP_20694069.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE15-1]
gi|437169134|ref|ZP_20699527.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_N202]
gi|437173351|ref|ZP_20701677.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_56-3991]
gi|437184671|ref|ZP_20708536.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_76-3618]
gi|437201078|ref|ZP_20711779.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 13183-1]
gi|437264915|ref|ZP_20720191.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_81-2490]
gi|437269227|ref|ZP_20722470.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SL909]
gi|437277439|ref|ZP_20726798.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SL913]
gi|437296826|ref|ZP_20732627.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_69-4941]
gi|437316046|ref|ZP_20737734.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 638970-15]
gi|437327880|ref|ZP_20740822.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 17927]
gi|437341947|ref|ZP_20745070.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CHS4]
gi|437350372|ref|ZP_20747323.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22558]
gi|437417704|ref|ZP_20754123.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 22-17]
gi|437445947|ref|ZP_20758669.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 40-18]
gi|437463551|ref|ZP_20763233.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 561362 1-1]
gi|437480886|ref|ZP_20768591.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642044 4-1]
gi|437492379|ref|ZP_20771610.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642046 4-7]
gi|437504726|ref|ZP_20775208.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648898 4-5]
gi|437538270|ref|ZP_20781969.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648899 3-17]
gi|437567274|ref|ZP_20787545.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648900 1-16]
gi|437580671|ref|ZP_20792074.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 1-17]
gi|437588169|ref|ZP_20793809.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 39-2]
gi|437604906|ref|ZP_20799085.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648902 6-8]
gi|437619527|ref|ZP_20803679.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648903 1-6]
gi|437646069|ref|ZP_20808964.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648904 3-6]
gi|437665555|ref|ZP_20814706.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 653049 13-19]
gi|437679849|ref|ZP_20818153.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642044 8-1]
gi|437700110|ref|ZP_20823697.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 561362 9-7]
gi|437702347|ref|ZP_20824129.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 42-20]
gi|437729604|ref|ZP_20830736.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 16-16]
gi|437761736|ref|ZP_20834740.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 76-2651]
gi|437837915|ref|ZP_20845908.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SARB17]
gi|437865341|ref|ZP_20848096.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 6.0562-1]
gi|438057339|ref|ZP_20856523.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 50-5646]
gi|438095444|ref|ZP_20862042.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 81-2625]
gi|438101889|ref|ZP_20864716.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 62-1976]
gi|438116459|ref|ZP_20870978.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 53-407]
gi|438140993|ref|ZP_20874991.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Pullorum str. ATCC 9120]
gi|440765148|ref|ZP_20944169.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH11G1113]
gi|440770486|ref|ZP_20949435.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH08SF124]
gi|440775172|ref|ZP_20954057.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH10GFN094]
gi|445142847|ref|ZP_21386258.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. SL1438]
gi|445151081|ref|ZP_21390031.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. HWS51]
gi|445169473|ref|ZP_21395276.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE8a]
gi|445180170|ref|ZP_21398117.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 20037]
gi|445226451|ref|ZP_21403932.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE10]
gi|445241208|ref|ZP_21407649.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 436]
gi|445330756|ref|ZP_21413944.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 18569]
gi|452122967|ref|YP_007473215.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Javiana str. CFSAN001992]
gi|61234163|sp|P0A2E3.1|RPOD_SALTY RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-70
gi|61234169|sp|P0A2E4.1|RPOD_SALTI RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-70
gi|154406|gb|AAA27242.1| rpoD protein [Salmonella enterica subsp. enterica serovar
Typhimurium]
gi|161365568|gb|ABX69336.1| hypothetical protein SPAB_04007 [Salmonella enterica subsp.
enterica serovar Paratyphi B str. SPB7]
gi|194404651|gb|ACF64873.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. SL254]
gi|194409997|gb|ACF70216.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. SL476]
gi|194459279|gb|EDX48118.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Kentucky str. CVM29188]
gi|194711626|gb|ACF90847.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Schwarzengrund str. CVM19633]
gi|195633147|gb|EDX51561.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. SL317]
gi|197215575|gb|ACH52972.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SL483]
gi|197242357|gb|EDY24977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Saintpaul str. SARA23]
gi|197289083|gb|EDY28452.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Schwarzengrund str. SL480]
gi|197937005|gb|ACH74338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. CT_02021853]
gi|199606214|gb|EDZ04759.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Virchow str. SL491]
gi|204322416|gb|EDZ07613.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Javiana str. GA_MM04042433]
gi|205323318|gb|EDZ11157.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Saintpaul str. SARA29]
gi|205331247|gb|EDZ18011.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar 4,[5],12:i:- str. CVM23701]
gi|205337819|gb|EDZ24583.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. SL486]
gi|205348629|gb|EDZ35260.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Hadar str. RI_05P066]
gi|206710272|emb|CAR34630.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Enteritidis str. P125109]
gi|301159764|emb|CBW19283.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. SL1344]
gi|312914239|dbj|BAJ38213.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. T000240]
gi|321225894|gb|EFX50948.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. TN061786]
gi|357207444|gb|AET55490.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Gallinarum/pullorum str. RKS5078]
gi|363553899|gb|EHL38144.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. SARB31]
gi|363556713|gb|EHL40926.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. LQC 10]
gi|363563041|gb|EHL47122.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. ATCC BAA710]
gi|363567634|gb|EHL51632.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. SARB30]
gi|363569692|gb|EHL53642.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 29N]
gi|363577752|gb|EHL61571.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 4441 H]
gi|363578554|gb|EHL62359.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 42N]
gi|366078815|gb|EHN42813.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Pomona str. ATCC 10729]
gi|374355182|gb|AEZ46943.1| RNA polymerase sigma factor rpoD [Salmonella enterica subsp.
enterica serovar Typhi str. P-stx-12]
gi|379050917|gb|EHY68809.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
houtenae str. ATCC BAA-1581]
gi|380464691|gb|AFD60094.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. 798]
gi|381291647|gb|EIC32884.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41579]
gi|381294245|gb|EIC35385.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41563]
gi|381298269|gb|EIC39350.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41573]
gi|381312913|gb|EIC53706.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41565]
gi|381315453|gb|EIC56216.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. 41566]
gi|383799948|gb|AFH47030.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. B182]
gi|392617222|gb|EIW99647.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. Levine 15]
gi|392620794|gb|EIX03160.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. Levine 1]
gi|392733879|gb|EIZ91070.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21539]
gi|392738743|gb|EIZ95883.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35199]
gi|392741709|gb|EIZ98805.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35185]
gi|392752921|gb|EJA09861.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 33953]
gi|392755522|gb|EJA12431.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35188]
gi|392757357|gb|EJA14247.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21559]
gi|392761715|gb|EJA18534.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19449]
gi|392762301|gb|EJA19116.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19447]
gi|392768964|gb|EJA25710.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19567]
gi|392779346|gb|EJA36015.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 35202]
gi|392781535|gb|EJA38176.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22513]
gi|392783044|gb|EJA39674.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21550]
gi|392786165|gb|EJA42722.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22425]
gi|392786615|gb|EJA43171.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21538]
gi|392799178|gb|EJA55437.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM N1543]
gi|392800361|gb|EJA56599.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM N18486]
gi|392804608|gb|EJA60761.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 22462]
gi|392806935|gb|EJA63019.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 21554]
gi|392809412|gb|EJA65449.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19443]
gi|392820345|gb|EJA76195.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19593]
gi|392823890|gb|EJA79681.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 37978]
gi|392834164|gb|EJA89774.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19536]
gi|392834827|gb|EJA90429.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 19470]
gi|392836033|gb|EJA91621.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Newport str. CVM 4176]
gi|395981367|gb|EJH90589.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 622731-39]
gi|395982020|gb|EJH91241.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 640631]
gi|395988035|gb|EJH97197.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639016-6]
gi|395994465|gb|EJI03541.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-0424]
gi|395995843|gb|EJI04907.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 485549-17]
gi|396009353|gb|EJI18286.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629164-26]
gi|396017172|gb|EJI26038.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 596866-70]
gi|396018377|gb|EJI27239.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 596866-22]
gi|396022061|gb|EJI30875.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639672-46]
gi|396027772|gb|EJI36535.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 629164-37]
gi|396028055|gb|EJI36817.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 639672-50]
gi|396034765|gb|EJI43446.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-1427]
gi|396042503|gb|EJI51125.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 77-2659]
gi|396044051|gb|EJI52649.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 78-1757]
gi|396048687|gb|EJI57236.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22510-1]
gi|396055888|gb|EJI64364.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648905 5-18]
gi|396068034|gb|EJI76382.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 6-18]
gi|396069674|gb|EJI78012.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 50-3079]
gi|396070813|gb|EJI79141.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 58-6482]
gi|402515169|gb|EJW22584.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00322]
gi|402516957|gb|EJW24365.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00325]
gi|402521782|gb|EJW29116.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00326]
gi|402532349|gb|EJW39546.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Heidelberg str. CFSAN00328]
gi|414014885|gb|EKS98719.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm1]
gi|414016082|gb|EKS99872.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm8]
gi|414016252|gb|EKT00026.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm2]
gi|414029128|gb|EKT12290.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm9]
gi|414030651|gb|EKT13744.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm3]
gi|414033435|gb|EKT16386.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm4]
gi|414043986|gb|EKT26449.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm6]
gi|414044730|gb|EKT27166.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm10]
gi|414049811|gb|EKT32010.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm11]
gi|414057077|gb|EKT38844.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm12]
gi|414063355|gb|EKT44505.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. STm5]
gi|434939815|gb|ELL46570.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Pullorum str. ATCC 9120]
gi|434959903|gb|ELL53349.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CHS44]
gi|434968231|gb|ELL60983.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1882]
gi|434970710|gb|ELL63271.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1884]
gi|434971444|gb|ELL63957.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE30663]
gi|434974529|gb|ELL66884.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22704]
gi|434980988|gb|ELL72875.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1594]
gi|434984610|gb|ELL76350.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1566]
gi|434985392|gb|ELL77079.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1580]
gi|434992976|gb|ELL84415.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1543]
gi|435000026|gb|ELL91200.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1441]
gi|435005005|gb|ELL95927.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1810]
gi|435005923|gb|ELL96843.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1558]
gi|435012435|gb|ELM03110.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1018]
gi|435019241|gb|ELM09685.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1010]
gi|435023188|gb|ELM13484.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1729]
gi|435029640|gb|ELM19698.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0895]
gi|435033787|gb|ELM23679.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0899]
gi|435033814|gb|ELM23704.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1457]
gi|435035721|gb|ELM25566.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1747]
gi|435045988|gb|ELM35614.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0968]
gi|435046754|gb|ELM36369.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1444]
gi|435058238|gb|ELM47593.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1445]
gi|435065362|gb|ELM54468.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1565]
gi|435067272|gb|ELM56333.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1808]
gi|435068463|gb|ELM57491.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1559]
gi|435076526|gb|ELM65309.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1811]
gi|435083461|gb|ELM72062.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1455]
gi|435084578|gb|ELM73163.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_0956]
gi|435088202|gb|ELM76659.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1725]
gi|435093190|gb|ELM81530.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1575]
gi|435097440|gb|ELM85699.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1745]
gi|435106611|gb|ELM94628.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 576709]
gi|435107942|gb|ELM95925.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1791]
gi|435108798|gb|ELM96763.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CDC_2010K_1795]
gi|435119002|gb|ELN06653.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 635290-58]
gi|435119068|gb|ELN06707.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-16]
gi|435126930|gb|ELN14324.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-19]
gi|435136584|gb|ELN23674.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 607308-9]
gi|435148450|gb|ELN35166.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE15-1]
gi|435148862|gb|ELN35576.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_N202]
gi|435158859|gb|ELN45231.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_56-3991]
gi|435159922|gb|ELN46240.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_81-2490]
gi|435161282|gb|ELN47524.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_76-3618]
gi|435172174|gb|ELN57717.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SL909]
gi|435172835|gb|ELN58360.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SL913]
gi|435179253|gb|ELN64403.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CVM_69-4941]
gi|435180522|gb|ELN65630.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 638970-15]
gi|435192061|gb|ELN76617.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 17927]
gi|435193613|gb|ELN78092.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. CHS4]
gi|435202339|gb|ELN86193.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 22-17]
gi|435210336|gb|ELN93607.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 40-18]
gi|435214406|gb|ELN97206.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 13183-1]
gi|435214439|gb|ELN97235.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 22558]
gi|435218062|gb|ELO00469.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642044 4-1]
gi|435218828|gb|ELO01229.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 561362 1-1]
gi|435228671|gb|ELO10094.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642046 4-7]
gi|435235014|gb|ELO15867.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648900 1-16]
gi|435235812|gb|ELO16594.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648898 4-5]
gi|435239116|gb|ELO19724.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648899 3-17]
gi|435240922|gb|ELO21312.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 1-17]
gi|435256849|gb|ELO36143.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648902 6-8]
gi|435258314|gb|ELO37581.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 39-2]
gi|435258807|gb|ELO38067.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648903 1-6]
gi|435265142|gb|ELO44027.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 653049 13-19]
gi|435271874|gb|ELO50312.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648904 3-6]
gi|435272119|gb|ELO50540.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 642044 8-1]
gi|435274171|gb|ELO52295.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 561362 9-7]
gi|435289716|gb|ELO66666.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 648901 16-16]
gi|435294683|gb|ELO71303.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 543463 42-20]
gi|435298617|gb|ELO74826.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SARB17]
gi|435309157|gb|ELO83938.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 76-2651]
gi|435314072|gb|ELO87550.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 81-2625]
gi|435314631|gb|ELO88028.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 50-5646]
gi|435324572|gb|ELO96505.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 62-1976]
gi|435327974|gb|ELO99625.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 53-407]
gi|435335768|gb|ELP05906.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 6.0562-1]
gi|436411184|gb|ELP09137.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH08SF124]
gi|436411786|gb|ELP09734.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH10GFN094]
gi|436414667|gb|ELP12594.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Agona str. SH11G1113]
gi|444848870|gb|ELX73989.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. SL1438]
gi|444855981|gb|ELX81019.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. HWS51]
gi|444863429|gb|ELX88254.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE8a]
gi|444867784|gb|ELX92461.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. SE10]
gi|444872192|gb|ELX96552.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 20037]
gi|444877816|gb|ELY01951.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 18569]
gi|444891018|gb|ELY14302.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Enteritidis str. 436]
gi|451911971|gb|AGF83777.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Javiana str. CFSAN001992]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
L+ M
Sbjct: 363 LKDFM 367
>gi|56415151|ref|YP_152226.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Paratyphi A str. ATCC 9150]
gi|197364081|ref|YP_002143718.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Paratyphi A str. AKU_12601]
gi|205358509|ref|ZP_02656872.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Kentucky str. CDC 191]
gi|205359720|ref|ZP_02831723.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Weltevreden str. HI_N05-537]
gi|375003048|ref|ZP_09727388.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Infantis str. SARB27]
gi|375120701|ref|ZP_09765868.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. SD3246]
gi|378446562|ref|YP_005234194.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. D23580]
gi|378452027|ref|YP_005239387.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. 14028S]
gi|378990530|ref|YP_005253694.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. UK-1]
gi|379702473|ref|YP_005244201.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. ST4/74]
gi|409246931|ref|YP_006887633.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica
subsp. enterica serovar Weltevreden str. 2007-60-3289-1]
gi|421883914|ref|ZP_16315136.1| RNA polymerase sigma factor rpoD [Salmonella enterica subsp.
enterica serovar Senftenberg str. SS209]
gi|16421768|gb|AAL22085.1| sigma D factor of RNA polymerase [Salmonella enterica subsp.
enterica serovar Typhimurium str. LT2]
gi|56129408|gb|AAV78914.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Paratyphi A str. ATCC 9150]
gi|197095558|emb|CAR61123.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Paratyphi A str. AKU_12601]
gi|205333914|gb|EDZ20678.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Kentucky str. CDC 191]
gi|205343355|gb|EDZ30119.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Weltevreden str. HI_N05-537]
gi|261248341|emb|CBG26178.1| RNA polymerase sigma-70 factor [Salmonella enterica subsp. enterica
serovar Typhimurium str. D23580]
gi|267995406|gb|ACY90291.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. 14028S]
gi|320087665|emb|CBY97429.1| RNA polymerase sigma factor rpoD Sigma-70 [Salmonella enterica
subsp. enterica serovar Weltevreden str. 2007-60-3289-1]
gi|323131572|gb|ADX19002.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. ST4/74]
gi|326624968|gb|EGE31313.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Dublin str. SD3246]
gi|332990077|gb|AEF09060.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhimurium str. UK-1]
gi|353077736|gb|EHB43496.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Infantis str. SARB27]
gi|379986515|emb|CCF87409.1| RNA polymerase sigma factor rpoD [Salmonella enterica subsp.
enterica serovar Senftenberg str. SS209]
Length = 660
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|293394293|ref|ZP_06638593.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera
DSM 4582]
gi|291423271|gb|EFE96500.1| DNA-directed RNA polymerase sigma subunit RpoD [Serratia odorifera
DSM 4582]
Length = 647
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 343 NETSDSWFEAALAMAKPWSEKLKDVAEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 402
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 403 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 459
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 460 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 514
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 515 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 573
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 574 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 628
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 629 LRKLRHPSRSEVLRSFL 645
>gi|259907100|ref|YP_002647456.1| RNA polymerase sigma factor RpoD [Erwinia pyrifoliae Ep1/96]
gi|385787029|ref|YP_005818138.1| RNA polymerase sigma factor RpoD [Erwinia sp. Ejp617]
gi|387869818|ref|YP_005801188.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia pyrifoliae DSM
12163]
gi|224962722|emb|CAX54177.1| Sigma D (Sigma 70) factor of RNA polymerase [Erwinia pyrifoliae
Ep1/96]
gi|283476901|emb|CAY72757.1| RNA polymerase sigma factor rpoD (Sigma-70) [Erwinia pyrifoliae DSM
12163]
gi|310766301|gb|ADP11251.1| RNA polymerase sigma factor RpoD [Erwinia sp. Ejp617]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + D+ R ++ + E T ++ QVK + +G
Sbjct: 309 NETNETWFKAALAMNKPWSEKLNDVSDDVNRGLQKLQQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|224585014|ref|YP_002638813.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Paratyphi C strain RKS4594]
gi|224469542|gb|ACN47372.1| RNA polymerase sigma factor [Salmonella enterica subsp. enterica
serovar Paratyphi C strain RKS4594]
Length = 658
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 391 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 447
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 448 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 502
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 503 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 562
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 563 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 616
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 617 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 656
>gi|448236296|ref|YP_001573337.2| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
arizonae serovar 62:z4,z23:- str. RSK2980]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>gi|160867572|gb|ABX24195.1| hypothetical protein SARI_04418 [Salmonella enterica subsp.
arizonae serovar 62:z4,z23:-]
Length = 660
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|448243976|ref|YP_007408029.1| RNA polymerase, sigma 70 (sigma D) factor [Serratia marcescens WW4]
gi|445214340|gb|AGE20010.1| RNA polymerase, sigma 70 (sigma D) factor [Serratia marcescens WW4]
gi|453063601|gb|EMF04580.1| RNA polymerase sigma factor RpoD [Serratia marcescens VGH107]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETSDSWFEAALAMAKPWSEKLKDVAEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|375257437|ref|YP_005016607.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca KCTC 1686]
gi|397660046|ref|YP_006500748.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca E718]
gi|423110410|ref|ZP_17098105.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5243]
gi|423116425|ref|ZP_17104116.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5245]
gi|365906915|gb|AEX02368.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca KCTC 1686]
gi|376378607|gb|EHS91366.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5245]
gi|376379569|gb|EHS92321.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5243]
gi|394348132|gb|AFN34253.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca E718]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 170/314 (54%), Gaps = 24/314 (7%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + + VKE +Q+ L + ++ + T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLLDVKEDVQRGLMKLQ---QIEQETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQP 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + + + +E +
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPLDSATT 538
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 539 ESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 598
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 599 LRHPSRSEVLRSFL 612
>gi|354725249|ref|ZP_09039464.1| RNA polymerase sigma factor RpoD [Enterobacter mori LMG 25706]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 169/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + ++ D+ R ++ + E T ++ QVK + +G
Sbjct: 309 NETSETWFNAAIAMNKPWSEKLHDVKDDVQRGLMKLQQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|309801431|ref|ZP_07695558.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium
JCVIHMP022]
gi|308221946|gb|EFO78231.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium
JCVIHMP022]
Length = 461
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 86/256 (33%), Positives = 148/256 (57%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K G+ A++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 212 ELKWAANDGKKAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 268
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
K+ F+ STY +WIR AI R+M + T RVP +++V ++ R + ++L +L
Sbjct: 269 WKKGFKFSTYATWWIRQAITRAMADQARTIRVPV-----HMVEVINKLSRVQRQMLQDLG 323
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I D D + +
Sbjct: 324 REPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAV 383
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LL+ VL++L P+E+ VI+ R+GL+ +TL +I ++RE +R+ E K +
Sbjct: 384 AFSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 443
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 444 SKLRHPSRSQTLRDFL 459
>gi|260599325|ref|YP_003211896.1| RNA polymerase sigma factor RpoD [Cronobacter turicensis z3032]
gi|260218502|emb|CBA33681.1| RNA polymerase sigma factor rpoD [Cronobacter turicensis z3032]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 168/317 (52%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVE-LAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + D+ R ++ + E T ++ QVK + +G
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLHDVADDVHRSLQKLQQIEEETGLTIEQVKDINRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 482 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 540
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 541 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 595
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 596 LRKLRHPSRSEVLRSFL 612
>gi|225436223|ref|XP_002273602.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 578
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 162/306 (52%), Gaps = 10/306 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L++TE L + +Q + +++E L++ G +PT + A A + +++ G
Sbjct: 280 LLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKTLRRRTNYGIR 339
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
++K+IK N+RLV+ + K Y G QDL Q G +GL+ ++F+ + F+ STY
Sbjct: 340 CKDKMIKSNIRLVISIAKNYQ---GAGMNIQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 396
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WI+ A+ +S++ S T R+PF +++ ++ A+ +L E R P +EE+ +
Sbjct: 397 HWWIKQAVRKSLSDQSRTIRLPF-----HMVEATYRVKEARKQLYSENGRHPNNEEVAEA 451
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDD 452
+S +R V+ K SL + G+ Q + I D D E +R L+
Sbjct: 452 TGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEVIADPDAETAEELLIKQFMREDLEK 511
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL+SL P+E VIR R+GL+ +TL EI + +SRE +R+ E KLK+ R +
Sbjct: 512 VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKH 571
Query: 513 LRQHMV 518
L+Q++V
Sbjct: 572 LQQYLV 577
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
LR +
Sbjct: 363 LRDFI 367
>gi|444331346|ref|ZP_21148854.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype a str. A160]
gi|443552561|gb|ELT59850.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype a str. A160]
Length = 616
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLVQYENQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|398937159|ref|ZP_10667198.1| RNA polymerase sigma factor, sigma-70 family [Pseudomonas sp.
GM41(2012)]
gi|398167142|gb|EJM55222.1| RNA polymerase sigma factor, sigma-70 family [Pseudomonas sp.
GM41(2012)]
Length = 616
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/316 (29%), Positives = 169/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVG 272
+ + +W L + + + +LQ D+ R + L T ++ A++K + +G
Sbjct: 312 NEVDESWTDALAKGKSKYAEAIGRLQPDIIRCQQKLTALQTETGLTIAEIKDINRRMSIG 371
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 372 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 428
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT
Sbjct: 429 KFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTP 483
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ + P
Sbjct: 484 EELGERMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVA 538
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 539 TVESLKEATREVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 598
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HPTR ++LR +
Sbjct: 599 RKLRHPTRSEHLRSFL 614
>gi|323137010|ref|ZP_08072090.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC
49242]
gi|322397771|gb|EFY00293.1| RNA polymerase, sigma 70 subunit, RpoD [Methylocystis sp. ATCC
49242]
Length = 670
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 101/313 (32%), Positives = 165/313 (52%), Gaps = 33/313 (10%)
Query: 223 WLFKLMQ----PMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEV------- 271
W+ ++ Q K FV ++ KDL E LA T + ++ +K + +
Sbjct: 371 WVMRVAQLRSRGWKEFVAEEKDRIKDLRAEIH--ALATETGLEISEFRKIVHMVQKGERE 428
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 429 ARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 485
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P + ++ +I R ++L E+ R PT EE+
Sbjct: 486 TYATWWIRQAITRSIADQARTIRIPVHM-----IETINKIVRTSRQMLHEIGREPTPEEL 540
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------A 444
+ + + E+ R+V+K +K +SL + G ++ + D +E++N P +
Sbjct: 541 SEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAVLPIEAAIQS 595
Query: 445 LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKL 504
LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L KL
Sbjct: 596 NLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKL 655
Query: 505 KHPTRVDYLRQHM 517
KHP+R LR +
Sbjct: 656 KHPSRSRKLRSFL 668
>gi|146313109|ref|YP_001178183.1| RNA polymerase sigma factor RpoD [Enterobacter sp. 638]
gi|145319985|gb|ABP62132.1| RNA polymerase, sigma 70 subunit, RpoD [Enterobacter sp. 638]
Length = 631
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 168/317 (52%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 327 NETSETWFNAAIAMNKPWSEKLHDVSDDVQRGLQKLRQIEEETGLTIEQVKDINRRMSIG 386
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 387 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 443
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 444 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 498
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D E+
Sbjct: 499 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTES- 557
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 558 -----LRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 612
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 613 LRKLRHPSRSEVLRSFL 629
>gi|410456772|ref|ZP_11310628.1| RNA polymerase sigma factor RpoD [Bacillus bataviensis LMG 21833]
gi|409927529|gb|EKN64662.1| RNA polymerase sigma factor RpoD [Bacillus bataviensis LMG 21833]
Length = 377
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 101/316 (31%), Positives = 168/316 (53%), Gaps = 33/316 (10%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR V+L A +
Sbjct: 91 FDLNDLSVPPGV---------KINDPVRMYL-------KEIGR----VDLLSAE--EEIK 128
Query: 265 VKKCLEVG-RAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
+ +E G A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 129 LANRIEAGDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFD 185
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L
Sbjct: 186 YRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLG 240
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQR 441
R PT EEI + ++++P++ RE++K ++ +SL + G + + I D D
Sbjct: 241 REPTPEEIGEDMDLTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSEHA 300
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E K L
Sbjct: 301 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 360
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R L+ +
Sbjct: 361 RKLRHPSRSKRLKDFL 376
>gi|406914403|gb|EKD53587.1| hypothetical protein ACD_61C00009G0004 [uncultured bacterium]
Length = 367
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 86/250 (34%), Positives = 141/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A++ L K NLRLV+ + KKY G F DL Q G KGLI A+++++ + F+ STY
Sbjct: 130 AKDMLTKSNLRLVVSIAKKYM---GRGMSFLDLIQEGNKGLIRAVEKYDWTKGFKFSTYA 186
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + +L+ +L R PTDEE+ +
Sbjct: 187 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRTQRKLMQDLGREPTDEEVAEE 241
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ +PE+ RE++K ++ SL + G ++ + D + +E Q P L+
Sbjct: 242 LETTPEKVREILKIAQKTTSLETPIGDDEDSLLG-----DFIPDERQATPYEATSRQLMH 296
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
L++ L SL +ES V+R RFGLDG TL E+ ++RE +R+ E K L KL+HP
Sbjct: 297 ENLEEALGSLTERESKVLRMRFGLDGSKPLTLEEVGKVFGVTRERIRQIESKALRKLRHP 356
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 357 SRRRKLQDYL 366
>gi|386286955|ref|ZP_10064135.1| transcription initiation factor sigma 70 [gamma proteobacterium
BDW918]
gi|385279994|gb|EIF43926.1| transcription initiation factor sigma 70 [gamma proteobacterium
BDW918]
Length = 604
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/251 (34%), Positives = 143/251 (56%), Gaps = 16/251 (6%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 363 ARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 419
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+
Sbjct: 420 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEEL 474
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGITDVDGVENENQRQPALL 446
+ + + ++ R+V+K +K +S+ + G ++ +FI T +E+ L
Sbjct: 475 GERMEMPEDKVRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGTISSPIESATGEG---L 531
Query: 447 RLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKH 506
R A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+H
Sbjct: 532 REATKDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 591
Query: 507 PTRVDYLRQHM 517
PTR D+LR +
Sbjct: 592 PTRSDHLRSFL 602
>gi|375124995|ref|ZP_09770159.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Gallinarum str. SG9]
gi|326629245|gb|EGE35588.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Gallinarum str. SG9]
Length = 660
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMEAPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|238750950|ref|ZP_04612447.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380]
gi|238710864|gb|EEQ03085.1| RNA polymerase sigma factor rpoD [Yersinia rohdei ATCC 43380]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSDTWFAAAIAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>gi|414175338|ref|ZP_11429742.1| RNA polymerase sigma factor rpoD [Afipia broomeae ATCC 49717]
gi|410889167|gb|EKS36970.1| RNA polymerase sigma factor rpoD [Afipia broomeae ATCC 49717]
Length = 715
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 467 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 523
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 524 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 578
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N + +D
Sbjct: 579 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAI 638
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 639 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 692
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 693 EAKALRKLKHPSRSRKLRSFL 713
>gi|381402875|ref|ZP_09927559.1| RNA polymerase sigma factor RpoD [Pantoea sp. Sc1]
gi|380736074|gb|EIB97137.1| RNA polymerase sigma factor RpoD [Pantoea sp. Sc1]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T +W + K + + ++Q D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETNESWFKAALAMNKPWSEKLLEVQDDVMRSLQKLAQVEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|338971873|ref|ZP_08627252.1| RNA polymerase sigma factor RpoD [Bradyrhizobiaceae bacterium
SG-6C]
gi|414168611|ref|ZP_11424574.1| RNA polymerase sigma factor RpoD [Afipia clevelandensis ATCC 49720]
gi|338234767|gb|EGP09878.1| RNA polymerase sigma factor RpoD [Bradyrhizobiaceae bacterium
SG-6C]
gi|410887347|gb|EKS35157.1| RNA polymerase sigma factor RpoD [Afipia clevelandensis ATCC 49720]
Length = 716
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/280 (33%), Positives = 149/280 (53%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCL-------EVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
ELA T + + +K + R A+ ++++ NLRLV+ + KKY G +F
Sbjct: 449 ELAALTGLEIGEFRKIVMGVQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFL 505
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P ++
Sbjct: 506 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMI 560
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ +I R ++L E+ R PT EE+ + + + E+ R+V+K +K LSL + G ++
Sbjct: 561 ETINKIVRTSRQMLNEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDS 620
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI N + +D N LR VL SL P+E V+R RFG+ D
Sbjct: 621 HLGDFIEDKNAVLPIDAAIQSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDH 674
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KLKHP+R LR +
Sbjct: 675 TLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFL 714
>gi|237729995|ref|ZP_04560476.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2]
gi|226908601|gb|EEH94519.1| RNA polymerase sigma-70 factor [Citrobacter sp. 30_2]
Length = 660
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 393 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 449
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 450 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 504
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 505 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 564
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 565 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 618
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 619 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 658
>gi|283836397|ref|ZP_06356138.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220]
gi|291067770|gb|EFE05879.1| RNA polymerase sigma factor RpoD [Citrobacter youngae ATCC 29220]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>gi|255659373|ref|ZP_05404782.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544]
gi|260848459|gb|EEX68466.1| RNA polymerase sigma factor RpoD [Mitsuokella multacida DSM 20544]
Length = 373
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/280 (34%), Positives = 152/280 (54%), Gaps = 21/280 (7%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++GR P + E+A A M A A+ +L + NLRLV+ + K+Y
Sbjct: 109 KEIGRVPLLTAEEEVALAKRMEAGD--------EEAQKRLAEANLRLVVSIAKRYV---G 157
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ + ++ STY +WIR AI R++ + T R+P
Sbjct: 158 RGMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIP--- 214
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
+++ ++ R +LL +L R PT EEI + + I +R RE+MK ++ +SL +
Sbjct: 215 --VHMVETINKLIRVSRQLLQQLGREPTPEEIAKEMEIGVDRVREIMKIAQEPVSLETPI 272
Query: 419 GVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + I D D + LL+ L+DVLD+L P+E V+R RFGLD R
Sbjct: 273 GEEEDSHLGDFIEDQDAPAPADAASFMLLKEQLEDVLDTLTPREEKVLRLRFGLDDGRAR 332
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ N ++RE +R+ E K L KL+HP+R L+ +
Sbjct: 333 TLEEVGQNFGVTRERIRQIEAKALRKLRHPSRSRKLKDFL 372
>gi|169830688|ref|YP_001716670.1| RNA polymerase sigma factor RpoD [Candidatus Desulforudis
audaxviator MP104C]
gi|169637532|gb|ACA59038.1| RNA polymerase, sigma 70 subunit, RpoD family [Candidatus
Desulforudis audaxviator MP104C]
Length = 360
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 144/250 (57%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +LI+ NLRLV+ + K+Y G F DL Q G GLI A+++F+ K+ ++ STY
Sbjct: 123 AKRRLIEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYKKGYKFSTYA 179
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R +LL EL R P EEI +
Sbjct: 180 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRISRQLLQELGREPLPEEIARE 234
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
++IS ++ RE+ K ++ +SL + G ++ + D +E+++ + PA LLR
Sbjct: 235 MDISEDKVREIQKIAQEPVSLETPIGEEEDSHLG-----DFIEDQDAQAPAEEASFTLLR 289
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
LDDVL +L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 290 EQLDDVLKTLTEREQRVLRLRFGLDDGRARTLEEVGQEFGVTRERIRQIEAKTLRKLRHP 349
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 350 SRSKKLKDYL 359
>gi|134300301|ref|YP_001113797.1| RNA polymerase sigma factor RpoD [Desulfotomaculum reducens MI-1]
gi|134053001|gb|ABO50972.1| RNA polymerase, sigma 70 subunit, RpoD [Desulfotomaculum reducens
MI-1]
Length = 367
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 144/250 (57%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+ ++ ++ STY
Sbjct: 130 AKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYA 186
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R +LL EL R P+ EEI +
Sbjct: 187 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLIRVSRQLLQELGREPSPEEIAKE 241
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA------LLR 447
++IS E+ RE++K ++ +SL + G ++ + D +E+ + R PA LLR
Sbjct: 242 MDISGEKVREILKIAQEPVSLETPIGEEEDSHLG-----DFIEDADARAPAEEASFTLLR 296
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
LD+VL +L +E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP
Sbjct: 297 EQLDEVLKTLTDREQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEAKTLRKLRHP 356
Query: 508 TRVDYLRQHM 517
+R L+ ++
Sbjct: 357 SRSKKLKDYL 366
>gi|91978433|ref|YP_571092.1| RNA polymerase sigma factor RpoD [Rhodopseudomonas palustris BisB5]
gi|91684889|gb|ABE41191.1| RNA polymerase sigma factor RpoD-like [Rhodopseudomonas palustris
BisB5]
Length = 711
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 463 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 519
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 520 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 574
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N + +D
Sbjct: 575 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAI 634
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 635 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 688
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 689 EAKALRKLKHPSRSRKLRSFL 709
>gi|421785642|ref|ZP_16222067.1| RNA polymerase sigma factor [Serratia plymuthica A30]
gi|407752257|gb|EKF62415.1| RNA polymerase sigma factor [Serratia plymuthica A30]
Length = 612
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 97/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T ++W + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 308 NETSNSWFEAALAMAKPWSEKLKDVTDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 367
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 368 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 424
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 425 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 479
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 480 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 538
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 539 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 593
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 594 LRKLRHPSRSEVLRSFL 610
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 100/314 (31%), Positives = 165/314 (52%), Gaps = 30/314 (9%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV------- 271
+ TWL + + K + E + R +V ++A AT M+ + ++ + +
Sbjct: 372 DDTWLPSMSKKDKKWAAFAENEADPVERIRAEVSDIAAATGMALPEFRRIVNMVQKGERE 431
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 432 ARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 488
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E R PT EE+
Sbjct: 489 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEM 543
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQP 443
+ +++ E+ R+VMK +K +SL + G ++ +FI N I VD N
Sbjct: 544 AERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN---- 599
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L K
Sbjct: 600 --LKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 657
Query: 504 LKHPTRVDYLRQHM 517
LKHP+R +R +
Sbjct: 658 LKHPSRSRKMRSFL 671
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 84/245 (34%), Positives = 143/245 (58%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+D+F+ + F+ STY
Sbjct: 131 AKQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYA 187
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P +++ ++ R + LL EL + PT E+I +
Sbjct: 188 TWWIRQAITRAIADQARTIRIP-----VHMVETINKLVREQRNLLQELGQDPTPEQIAER 242
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQPALLRLALDD 452
++++P++ RE++K ++ +SL + G + + + + +EN + +LR LD+
Sbjct: 243 MDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE 302
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L +E V+R RFGLD RTL ++ N++RE +R+ E K L KL+HP+R
Sbjct: 303 VLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQ 362
Query: 513 LRQHM 517
L+ M
Sbjct: 363 LKDFM 367
>gi|449102794|ref|ZP_21739541.1| RNA polymerase sigma factor RpoD [Treponema denticola AL-2]
gi|448965596|gb|EMB46257.1| RNA polymerase sigma factor RpoD [Treponema denticola AL-2]
Length = 619
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 88/258 (34%), Positives = 150/258 (58%), Gaps = 10/258 (3%)
Query: 262 AAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDR 321
+++K + + A++KLI NLRLV+ + KKY G +F DL Q G GLI A+++
Sbjct: 368 TSEIKNGQRMLKNAKDKLINANLRLVVSIAKKYIN---RGLQFFDLVQEGNIGLIKAVEK 424
Query: 322 FEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFE 380
FE ++ ++ STY +WIR AI RS++ + T RVP + I Q+ ++ R +L+ +
Sbjct: 425 FEYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHM----IEQI-NKVNRESRQLMQK 479
Query: 381 LKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVEN-EN 439
L R P D+EI + S E+ ++V ++ +SL + G ++ + + + GVEN N
Sbjct: 480 LGREPNDDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSN 539
Query: 440 QRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 499
+ + LL+ L+ VL SL +E V++ RFG++G TL E+ +++RE +R+ E K
Sbjct: 540 RTELTLLQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAK 599
Query: 500 GLMKLKHPTRVDYLRQHM 517
GL +L+HP R L+ ++
Sbjct: 600 GLRRLRHPKRSRKLKDYL 617
>gi|402840242|ref|ZP_10888711.1| RNA polymerase sigma factor RpoD [Klebsiella sp. OBRC7]
gi|423104915|ref|ZP_17092617.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5242]
gi|376381681|gb|EHS94417.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5242]
gi|402287192|gb|EJU35652.1| RNA polymerase sigma factor RpoD [Klebsiella sp. OBRC7]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 170/314 (54%), Gaps = 24/314 (7%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + + VKE +Q+ L + ++ + T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLLDVKEDVQRGLMKLQ---QIEQETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQP 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + + + +E +
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPLDSATT 538
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 539 ESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 598
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 599 LRHPSRSEVLRSFL 612
>gi|238762467|ref|ZP_04623438.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638]
gi|238699452|gb|EEP92198.1| RNA polymerase sigma factor rpoD [Yersinia kristensenii ATCC 33638]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 170/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + D+ R + ++ E T ++ QVK + +G
Sbjct: 309 NETSDTWFAAAVAMGKPWSEKLKDVSDDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 368
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 369 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 425
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 426 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 480
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 481 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 539
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 540 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 594
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 595 LRKLRHPSRSEVLRSFL 611
>gi|445135611|ref|ZP_21383363.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Gallinarum str. 9184]
gi|444845812|gb|ELX71000.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Gallinarum str. 9184]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMEAPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>gi|414165560|ref|ZP_11421807.1| RNA polymerase sigma factor rpoD [Afipia felis ATCC 53690]
gi|410883340|gb|EKS31180.1| RNA polymerase sigma factor rpoD [Afipia felis ATCC 53690]
Length = 709
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 461 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 517
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 518 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 572
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 573 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 632
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 633 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 686
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 687 EAKALRKLKHPSRSRKLRSFL 707
>gi|406978397|gb|EKE00372.1| hypothetical protein ACD_22C00037G0001 [uncultured bacterium]
Length = 367
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 99/286 (34%), Positives = 155/286 (54%), Gaps = 37/286 (12%)
Query: 243 KDLGREPT---DVELAEATNMSAAQVKKCLEVGRA-ARNKLIKHNLRLVLFVIKKYFQDF 298
K++GR P D E+A A + +E G A A++ L K NLRLV+ + KKY
Sbjct: 103 KEIGRIPLLKRDEEIALA---------QKVERGNAHAKDMLTKSNLRLVVSIAKKYM--- 150
Query: 299 ANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFG 357
G F DL Q G KGLI A+++++ + F+ STY +WIR AI R++ + T R+P
Sbjct: 151 GRGMSFLDLIQEGNKGLIRAVEKYDWTKGFKFSTYATWWIRQAITRAIADQARTIRIP-- 208
Query: 358 LESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSR 417
+++ ++ R + +L+ +L R PTD+E+ + +PE+ RE++K ++ SL +
Sbjct: 209 ---VHMVETINKLIRTQRKLMQDLGREPTDDEVAAELETTPEKVREILKIAQKTTSLETP 265
Query: 418 HGVTQEEFINGITDVDGVENENQRQP------ALLRLALDDVLDSLKPKESLVIRQRFGL 471
G ++ + D + +E Q P L+ L+D L SL +ES V+R RFGL
Sbjct: 266 IGDDEDSMLG-----DFIPDERQATPYESTSRQLMHENLEDALGSLTERESKVLRMRFGL 320
Query: 472 DGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR----VDYL 513
DG TL E+ ++RE +R+ E K L KL+HP+R DYL
Sbjct: 321 DGSKPLTLEEVGKVFGVTRERIRQIESKALRKLRHPSRRRKLQDYL 366
>gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera]
Length = 575
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/306 (30%), Positives = 162/306 (52%), Gaps = 10/306 (3%)
Query: 215 VLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKCLEVGRA 274
+L++TE L + +Q + +++E L++ G +PT + A A + +++ G
Sbjct: 277 LLTATEELELSEGIQDLLKLEKLQEDLEERFGVKPTFAQWAAAAGVDQKTLRRRTNYGIR 336
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
++K+IK N+RLV+ + K Y G QDL Q G +GL+ ++F+ + F+ STY
Sbjct: 337 CKDKMIKSNIRLVISIAKNYQ---GAGMNIQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 393
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WI+ A+ +S++ S T R+PF +++ ++ A+ +L E R P +EE+ +
Sbjct: 394 HWWIKQAVRKSLSDQSRTIRLPF-----HMVEATYRVKEARKQLYSENGRHPNNEEVAEA 448
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLALDD 452
+S +R V+ K SL + G+ Q + I D D E +R L+
Sbjct: 449 TGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSEVIADPDAETAEELLIKQFMREDLEK 508
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VL+SL P+E VIR R+GL+ +TL EI + +SRE +R+ E KLK+ R +
Sbjct: 509 VLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLKNKRRTKH 568
Query: 513 LRQHMV 518
L+Q++V
Sbjct: 569 LQQYLV 574
>gi|75676624|ref|YP_319045.1| RNA polymerase sigma factor RpoD [Nitrobacter winogradskyi Nb-255]
gi|74421494|gb|ABA05693.1| RNA polymerase, sigma 70 subunit, RpoD [Nitrobacter winogradskyi
Nb-255]
Length = 717
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 469 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 525
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 526 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 580
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N + +D
Sbjct: 581 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAI 640
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 641 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 694
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 695 EAKALRKLKHPSRSRKLRSFL 715
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/258 (35%), Positives = 146/258 (56%), Gaps = 20/258 (7%)
Query: 267 KCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKR 326
K E + AR +L + NLRLV+ + K+Y G +F DL Q G GL+ A+++F+ K+
Sbjct: 128 KIEEGDQEARQRLAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVEKFDYKK 184
Query: 327 RFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVP 385
F+ STY +WIR AI R++ + T R+P + T +R IQR +LL +L R P
Sbjct: 185 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--IQR---QLLQDLGREP 239
Query: 386 TDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQPA- 444
T EEI +++ E+ RE++K ++ +SL + G + + D +E+ + PA
Sbjct: 240 TPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDHDATSPAE 294
Query: 445 -----LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVK 499
LL+ L+DVLD+L +E V+R RFGLD +RTL ++ ++RE +R+ E K
Sbjct: 295 NAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRNRTLEDVGKVFGVTRERIRQIEAK 354
Query: 500 GLMKLKHPTRVDYLRQHM 517
L KL+HP+R L+ +
Sbjct: 355 ALRKLRHPSRSKQLKDFL 372
>gi|297584635|ref|YP_003700415.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
selenitireducens MLS10]
gi|297143092|gb|ADH99849.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
selenitireducens MLS10]
Length = 371
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 101/321 (31%), Positives = 169/321 (52%), Gaps = 41/321 (12%)
Query: 204 SLDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREP-----TDVELAEAT 258
+ D + +PP + K+ P+++++ K++GR P +VELA
Sbjct: 84 AFDLNDLSVPPGI---------KINDPVRMYL-------KEIGRVPLLSAKEEVELA--- 124
Query: 259 NMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITA 318
K+ E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A
Sbjct: 125 -------KRIEEDDEEAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKA 174
Query: 319 IDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLEL 377
+++F+ + F+ STY +WIR AI R++ + T R+P + T +R +QR +L
Sbjct: 175 VEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QL 229
Query: 378 LFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVE 436
L +L R PT EE+ + + ++P++ RE++K ++ +SL + G + + I D + +
Sbjct: 230 LQDLGREPTPEEVSKEMELTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEALA 289
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+
Sbjct: 290 PSDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQI 349
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KL+HP+R L+ +
Sbjct: 350 EAKALRKLRHPSRSKRLKDFL 370
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 91/280 (32%), Positives = 156/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKCLEV-------GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E SAA++++ LE+ A+ +LI+ NLRLV+ + K+Y G +F
Sbjct: 291 QMEEQYGASAAELRRTLEIITQAHQEAETAKKELIEANLRLVVSIAKRYTN---RGLQFL 347
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +W+R AI R++ + T R+P ++
Sbjct: 348 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWVRQAITRAIADQARTIRIP-----VHMI 402
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R +++ EL R P++EE+ + + + + R+V++ ++ +SL + G +E
Sbjct: 403 ETINKLIRTSRQMVQELGREPSNEELAKRLQLPVSKVRKVLRVAQEPISLETPIGEEEES 462
Query: 424 ---EFI---NGITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI NGI+ D V N N LR VL +L P+E +I+ RFGL+ +
Sbjct: 463 HLGDFIVDQNGISPSDAVINLN------LREQTAQVLKTLTPREEKIIKMRFGLEDGSEH 516
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ N ++RE +R+ E K L KL+HP+R LR +
Sbjct: 517 TLEEVGQNFAVTRERIRQIEAKALRKLRHPSRSHRLRAFL 556
>gi|410460493|ref|ZP_11314171.1| RNA polymerase sigma factor RpoD [Bacillus azotoformans LMG 9581]
gi|409927108|gb|EKN64254.1| RNA polymerase sigma factor RpoD [Bacillus azotoformans LMG 9581]
Length = 380
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 101/320 (31%), Positives = 173/320 (54%), Gaps = 41/320 (12%)
Query: 205 LDWKKMKIPPVLSSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAEATNMSAAQ 264
D + +PP + K+ P+++++ K++GR D+ A+ A +
Sbjct: 94 FDLNDLSVPPGI---------KINDPVRMYL-------KEIGR--VDLLSADEEIQLAER 135
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
++K E A+ +L + NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 136 IEKGDE---EAKRRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGNMGLIKAVEKFDY 189
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
++ F+ STY +WIR AI R++ + T R+P + T +R +QR +LL +L R
Sbjct: 190 RKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQR---QLLQDLGR 244
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP 443
P+ EEI + ++++PE+ RE++K ++ +SL + G + + D +E++ P
Sbjct: 245 EPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLG-----DFIEDQEATSP 299
Query: 444 A------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHE 497
+ LL+ L+DVLD+L +E V+R RFGLD RTL E+ ++RE +R+ E
Sbjct: 300 SDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 359
Query: 498 VKGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R L+ +
Sbjct: 360 AKALRKLRHPSRSKRLKDFL 379
>gi|416426595|ref|ZP_11693090.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 315996572]
gi|416429169|ref|ZP_11694382.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-1]
gi|416439221|ref|ZP_11700098.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-3]
gi|416445946|ref|ZP_11704701.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-4]
gi|416451337|ref|ZP_11708087.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 515920-1]
gi|416460084|ref|ZP_11714529.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 515920-2]
gi|416462592|ref|ZP_11715559.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 531954]
gi|416480236|ref|ZP_11722753.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. NC_MB110209-0054]
gi|416492812|ref|ZP_11727599.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. OH_2009072675]
gi|416500790|ref|ZP_11731652.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CASC_09SCPH15965]
gi|416546667|ref|ZP_11754061.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 19N]
gi|416577596|ref|ZP_11769882.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 81038-01]
gi|416584126|ref|ZP_11773866.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MD_MDA09249507]
gi|416591539|ref|ZP_11778483.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 414877]
gi|416598414|ref|ZP_11782801.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 366867]
gi|416606930|ref|ZP_11788171.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 413180]
gi|416610473|ref|ZP_11790080.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 446600]
gi|416619019|ref|ZP_11794825.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 609458-1]
gi|416628553|ref|ZP_11799718.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 556150-1]
gi|416641696|ref|ZP_11805515.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 609460]
gi|416647002|ref|ZP_11808001.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 507440-20]
gi|416656894|ref|ZP_11813350.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 556152]
gi|416670369|ref|ZP_11820083.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB101509-0077]
gi|416675221|ref|ZP_11821544.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB102109-0047]
gi|416699973|ref|ZP_11828987.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB110209-0055]
gi|416705892|ref|ZP_11831151.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB111609-0052]
gi|416712428|ref|ZP_11836139.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 2009083312]
gi|416718626|ref|ZP_11840734.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 2009085258]
gi|416723019|ref|ZP_11843784.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 315731156]
gi|416733008|ref|ZP_11850099.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2009159199]
gi|416737738|ref|ZP_11852891.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008282]
gi|416748459|ref|ZP_11858716.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008283]
gi|416754851|ref|ZP_11861643.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008284]
gi|416761493|ref|ZP_11865544.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008285]
gi|416771380|ref|ZP_11872645.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008287]
gi|418481711|ref|ZP_13050734.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 80959-06]
gi|418490894|ref|ZP_13057428.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035278]
gi|418495693|ref|ZP_13062131.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035318]
gi|418498510|ref|ZP_13064924.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035320]
gi|418505718|ref|ZP_13072064.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035321]
gi|418507681|ref|ZP_13074000.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035327]
gi|418524470|ref|ZP_13090455.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008286]
gi|322613615|gb|EFY10556.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 315996572]
gi|322621208|gb|EFY18066.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-1]
gi|322624271|gb|EFY21105.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-3]
gi|322627991|gb|EFY24780.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 495297-4]
gi|322633109|gb|EFY29851.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 515920-1]
gi|322636314|gb|EFY33022.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 515920-2]
gi|322643488|gb|EFY40050.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 531954]
gi|322644793|gb|EFY41328.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. NC_MB110209-0054]
gi|322648602|gb|EFY45049.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. OH_2009072675]
gi|322653654|gb|EFY49980.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CASC_09SCPH15965]
gi|322657762|gb|EFY54030.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 19N]
gi|322663863|gb|EFY60062.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 81038-01]
gi|322669126|gb|EFY65277.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MD_MDA09249507]
gi|322672881|gb|EFY68988.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 414877]
gi|322678129|gb|EFY74192.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 366867]
gi|322681305|gb|EFY77338.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 413180]
gi|322687765|gb|EFY83732.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 446600]
gi|323195577|gb|EFZ80754.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 609458-1]
gi|323199742|gb|EFZ84832.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 556150-1]
gi|323202510|gb|EFZ87550.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 609460]
gi|323212446|gb|EFZ97263.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 556152]
gi|323215072|gb|EFZ99820.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB101509-0077]
gi|323222802|gb|EGA07167.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB102109-0047]
gi|323224117|gb|EGA08410.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB110209-0055]
gi|323230441|gb|EGA14559.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. MB111609-0052]
gi|323235207|gb|EGA19293.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 2009083312]
gi|323239248|gb|EGA23298.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 2009085258]
gi|323244394|gb|EGA28400.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 315731156]
gi|323247011|gb|EGA30977.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2009159199]
gi|323253507|gb|EGA37336.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008282]
gi|323256187|gb|EGA39923.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008283]
gi|323262637|gb|EGA46193.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008284]
gi|323267267|gb|EGA50751.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008285]
gi|323269331|gb|EGA52786.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008287]
gi|366058209|gb|EHN22498.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035318]
gi|366064257|gb|EHN28457.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035278]
gi|366064444|gb|EHN28641.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 80959-06]
gi|366068025|gb|EHN32173.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035321]
gi|366073262|gb|EHN37335.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035320]
gi|366080935|gb|EHN44889.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. CT_02035327]
gi|366830445|gb|EHN57315.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. 507440-20]
gi|372207329|gb|EHP20828.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Montevideo str. IA_2010008286]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>gi|420375358|ref|ZP_14875229.1| RNA polymerase sigma factor rpoD [Shigella flexneri 1235-66]
gi|391312754|gb|EIQ70361.1| RNA polymerase sigma factor rpoD [Shigella flexneri 1235-66]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 347 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 403
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 404 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 458
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 459 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 518
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 519 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 572
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 573 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 612
>gi|421729243|ref|ZP_16168388.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca M5al]
gi|423125842|ref|ZP_17113521.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5250]
gi|376398417|gb|EHT11043.1| RNA polymerase sigma factor rpoD [Klebsiella oxytoca 10-5250]
gi|410369970|gb|EKP24706.1| RNA polymerase sigma factor RpoD [Klebsiella oxytoca M5al]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 96/314 (30%), Positives = 170/314 (54%), Gaps = 24/314 (7%)
Query: 217 SSTEHTWL---FKLMQPM-KVFVQVKEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T TW + +P + + VKE +Q+ L + ++ + T ++ QVK +
Sbjct: 310 NETSETWFNAAIAMNKPWSEKLLDVKEDVQRGLMKLQ---QIEQETGLTIEQVKDINRRM 366
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 423
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R
Sbjct: 424 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGRE 478
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENE-NQRQP 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + + + +E +
Sbjct: 479 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPLDSATT 538
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 539 ESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 598
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 599 LRHPSRSEVLRSFL 612
>gi|365103141|ref|ZP_09333173.1| RNA polymerase sigma factor rpoD [Citrobacter freundii 4_7_47CFAA]
gi|395228345|ref|ZP_10406668.1| RNA polymerase sigma factor rpoD [Citrobacter sp. A1]
gi|421845166|ref|ZP_16278321.1| RNA polymerase sigma factor RpoD [Citrobacter freundii ATCC 8090 =
MTCC 1658]
gi|424732034|ref|ZP_18160615.1| rna polymerase sigma factor rpod [Citrobacter sp. L17]
gi|363645480|gb|EHL84743.1| RNA polymerase sigma factor rpoD [Citrobacter freundii 4_7_47CFAA]
gi|394717994|gb|EJF23638.1| RNA polymerase sigma factor rpoD [Citrobacter sp. A1]
gi|411773487|gb|EKS57032.1| RNA polymerase sigma factor RpoD [Citrobacter freundii ATCC 8090 =
MTCC 1658]
gi|422893662|gb|EKU33509.1| rna polymerase sigma factor rpod [Citrobacter sp. L17]
gi|455642706|gb|EMF21857.1| RNA polymerase sigma factor RpoD [Citrobacter freundii GTC 09479]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>gi|261318089|ref|ZP_05957286.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94]
gi|265989123|ref|ZP_06101680.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1]
gi|340791088|ref|YP_004756553.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94]
gi|261297312|gb|EEY00809.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94]
gi|264661320|gb|EEZ31581.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis M292/94/1]
gi|340559547|gb|AEK54785.1| RNA polymerase sigma factor RpoD [Brucella pinnipedialis B2/94]
Length = 672
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 91/261 (34%), Positives = 144/261 (55%), Gaps = 20/261 (7%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
QV+K A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 423 QVQKGEREATIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFE 479
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+
Sbjct: 480 YRRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLHEIG 534
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQ 442
R PT EE+ + + + E+ R+V+K +K +SL + G ++ + D +E++N
Sbjct: 535 REPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSLLG-----DFIEDKNALL 589
Query: 443 P------ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
P A LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 590 PIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 649
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 650 EAKALRKLKHPSRSRKLRSFL 670
>gi|85715949|ref|ZP_01046926.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A]
gi|85697147|gb|EAQ35028.1| RNA polymerase sigma factor [Nitrobacter sp. Nb-311A]
Length = 716
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 468 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 524
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 525 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 579
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N + +D
Sbjct: 580 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAVLPIDAAI 639
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 640 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 693
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 694 EAKALRKLKHPSRSRKLRSFL 714
>gi|407069934|ref|ZP_11100772.1| RNA polymerase sigma factor RpoD [Vibrio cyclitrophicus ZF14]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/316 (29%), Positives = 170/316 (53%), Gaps = 28/316 (8%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDVELAE-ATNMSAAQVKKC---LEVG 272
+ + WL +++ K + + ++ + D+ R +++ E T+++ +K + +G
Sbjct: 310 NESSEAWLDEVLASDKPYAEKIKRNEHDIRRSIQKLDMIERETSLTVQSIKDISRRMSIG 369
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 370 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R P
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPLP 481
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP---- 443
EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ P
Sbjct: 482 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDTTLELPLDSA 536
Query: 444 --ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
LR A DVL L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L
Sbjct: 537 TATSLRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 596
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R + LR +
Sbjct: 597 RKLRHPSRSETLRSFL 612
>gi|365847769|ref|ZP_09388251.1| RNA polymerase sigma factor RpoD [Yokenella regensburgei ATCC
43003]
gi|364571625|gb|EHM49202.1| RNA polymerase sigma factor RpoD [Yokenella regensburgei ATCC
43003]
Length = 614
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 347 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 403
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 404 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 458
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 459 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 518
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 519 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 572
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 573 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 612
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/272 (34%), Positives = 151/272 (55%), Gaps = 25/272 (9%)
Query: 258 TNMSAAQ-----VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ KK + A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKKIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T +R +Q
Sbjct: 166 MGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQ 223
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITD 431
R +LL +L R P EEI + +++ PE+ RE++K ++ +SL + G + +
Sbjct: 224 R---QLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLG---- 276
Query: 432 VDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGN 485
D +E++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+
Sbjct: 277 -DFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 335
Query: 486 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R L+ M
Sbjct: 336 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>gi|422337067|ref|ZP_16418039.1| RNA polymerase sigma factor rpoD [Aggregatibacter aphrophilus
F0387]
gi|353345619|gb|EHB89910.1| RNA polymerase sigma factor rpoD [Aggregatibacter aphrophilus
F0387]
Length = 623
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/314 (29%), Positives = 168/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + DL + + V++ + T+++ Q+++ E
Sbjct: 321 TTDTWLIKALGAGKAWSEKLVQYENDLRQAIANLVQIEQDTHLTIQQIREICERIAQGEL 380
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 381 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 437
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 438 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 492
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 493 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATA 547
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 548 QSLKAATHEVLEGLTSREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 607
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 608 LRHPSRSETLRSFL 621
>gi|22127411|ref|NP_670834.1| RNA polymerase sigma factor RpoD [Yersinia pestis KIM10+]
gi|21960500|gb|AAM87085.1|AE013956_10 RNA polymerase, sigma(70) factor [Yersinia pestis KIM10+]
Length = 632
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/317 (30%), Positives = 171/317 (53%), Gaps = 30/317 (9%)
Query: 217 SSTEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKC---LEVG 272
+ T TW + K + + + + +D+ R + ++ E T ++ QVK + +G
Sbjct: 328 NETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIG 387
Query: 273 RA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRF 328
A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R +
Sbjct: 388 EAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGY 444
Query: 329 RLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTD 387
+ STY +WIR AI RS+ + T R+P + ++ ++ R ++L E+ R PT
Sbjct: 445 KFSTYATWWIRQAITRSIADQARTIRIPVHM-----IETINKLNRISRQMLQEMGREPTP 499
Query: 388 EEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFINGIT---DVDGVENENQ 440
EE+ + + + ++ R+V+K +K +S+ + G ++ +FI T +D +E+
Sbjct: 500 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSES- 558
Query: 441 RQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKG 500
LR A DVL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K
Sbjct: 559 -----LRSATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 613
Query: 501 LMKLKHPTRVDYLRQHM 517
L KL+HP+R + LR +
Sbjct: 614 LRKLRHPSRSEVLRSFL 630
>gi|330505280|ref|YP_004382149.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01]
gi|328919566|gb|AEB60397.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina NK-01]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 166/310 (53%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVGRA---- 274
W L + + + LQ D+ R + +L ++S A++K + +G A
Sbjct: 317 WAADLAKGKAKYAEALGNLQGDIQRCQQKLADLEAECSLSLAEIKDINRRMSIGEAKARR 376
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 377 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 433
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 434 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEELGER 488
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L+
Sbjct: 489 MEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVESLK 543
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 544 EATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 603
Query: 508 TRVDYLRQHM 517
TR ++LR +
Sbjct: 604 TRSEHLRSFL 613
>gi|261868195|ref|YP_003256117.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans D11S-1]
gi|415770838|ref|ZP_11485084.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans D17P-2]
gi|444345851|ref|ZP_21153855.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype c str. AAS4A]
gi|261413527|gb|ACX82898.1| RNA polymerase sigma factor RpoD (Sigma-70) [Aggregatibacter
actinomycetemcomitans D11S-1]
gi|348656619|gb|EGY74229.1| RNA polymerase sigma factor RpoD [Aggregatibacter
actinomycetemcomitans D17P-2]
gi|443542392|gb|ELT52729.1| DNA-directed RNA polymerase sigma subunit RpoD [Aggregatibacter
actinomycetemcomitans serotype c str. AAS4A]
Length = 616
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/314 (29%), Positives = 169/314 (53%), Gaps = 28/314 (8%)
Query: 219 TEHTWLFKLMQPMKVFVQVKEQLQKDLGREPTD-VELAEATNMSAAQVKKCLE------- 270
T TWL K + K + + Q + L + T+ V++ + T+++ Q+++ E
Sbjct: 314 TTDTWLVKALSAGKSWSEKLVQYENQLRQAITNLVQIEQDTHLTIPQIREIGERITQGEL 373
Query: 271 VGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRL 330
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++
Sbjct: 374 KARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 430
Query: 331 STYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEE 389
STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R + EE
Sbjct: 431 STYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREASPEE 485
Query: 390 IIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ 443
+ + + + ++ R+V+K +K +S+ + G + + D +E+ P
Sbjct: 486 LAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLG-----DFIEDSTLELPLDSATV 540
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ A +VL+ L P+E+ V+R RFG+D D TL E+ +++RE +R+ E K L K
Sbjct: 541 QSLKAATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 600
Query: 504 LKHPTRVDYLRQHM 517
L+HP+R + LR +
Sbjct: 601 LRHPSRSETLRSFL 614
>gi|289827081|ref|ZP_06545870.1| RNA polymerase sigma factor RpoD [Salmonella enterica subsp.
enterica serovar Typhi str. E98-3139]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 348 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 404
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 405 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 459
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 460 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 519
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 520 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 573
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 574 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 613
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/245 (35%), Positives = 140/245 (57%), Gaps = 10/245 (4%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ +L + NLRLV+ + K+Y G +F DL Q G GL+ A+++F+ ++ F+ STY
Sbjct: 140 AKQELAEANLRLVVSIAKRYV---GRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYA 196
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI R++ + T R+P + T +R IQR LL +L R PT EEI
Sbjct: 197 TWWIRQAITRAIADQARTIRIPVHMVETINKLIR--IQR---NLLQDLGREPTPEEIGAE 251
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFING-ITDVDGVENENQRQPALLRLALDD 452
++I E+ R+++K ++ +SL + G + + I D + + + +L++ L+
Sbjct: 252 MDIPTEKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSAAYEMLKVQLES 311
Query: 453 VLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDY 512
VLD+L P+E V+R RFGLD RTL E+ ++RE +R+ E K L KL+HP+R
Sbjct: 312 VLDTLTPREEQVLRLRFGLDDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKQ 371
Query: 513 LRQHM 517
LR +
Sbjct: 372 LRDFL 376
>gi|427430770|ref|ZP_18920484.1| RNA polymerase sigma factor RpoD [Caenispirillum salinarum AK4]
gi|425878261|gb|EKV26978.1| RNA polymerase sigma factor RpoD [Caenispirillum salinarum AK4]
Length = 689
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/250 (34%), Positives = 140/250 (56%), Gaps = 20/250 (8%)
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++I+ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 451 AKKEMIEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 507
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 508 TWWIRQAITRSIADQARTIRIPV-----HMIETINKLVRTSRQMLHEIGREPTPEELAEK 562
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + E+ R+V+K +K +SL + G ++ + D +E++N QP LR
Sbjct: 563 LQMPLEKVRKVLKIAKEPISLETPIGDEEDSHLG-----DFIEDKNAVQPLDAAIQGNLR 617
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
+L +L P+E V+R RFG+ D TL E+ N++RE +R+ E K L KLKHP
Sbjct: 618 ETCTRILATLTPREERVLRMRFGIGMNTDHTLEEVGQQFNVTRERIRQIEAKALRKLKHP 677
Query: 508 TRVDYLRQHM 517
+R LR +
Sbjct: 678 SRSRKLRSFL 687
>gi|28211633|ref|NP_782577.1| RNA polymerase sigma factor RpoD [Clostridium tetani E88]
gi|28204075|gb|AAO36514.1| RNA polymerase sigma factor rpoD [Clostridium tetani E88]
Length = 366
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/280 (35%), Positives = 156/280 (55%), Gaps = 21/280 (7%)
Query: 243 KDLGREP---TDVELAEATNMSAAQVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFA 299
K++G+ P ++ E+ A + A ++K AR KL + NLRLV+ + K+Y
Sbjct: 102 KEIGKVPLLTSEEEVDLAQRIEAGELK--------ARKKLAEANLRLVVSIAKRYV---G 150
Query: 300 NGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGL 358
G F DL Q G GLI A+++F+ ++ ++ STY +WIR AI R++ + T R+P +
Sbjct: 151 RGMLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 210
Query: 359 ESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRH 418
T ++ R +LL EL R PT EEI + + IS +R RE+MK ++ +SL +
Sbjct: 211 VETI-----NKLIRVSRQLLQELGREPTPEEIAKEMEISVDRVREIMKIAQEPVSLETPI 265
Query: 419 GVTQEEFING-ITDVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
G ++ + I D D + +L+ L +VLD+L P+E V+R RFGLD R
Sbjct: 266 GEEEDSHLGDFIPDDDALAPAEAAAFTMLKEQLINVLDTLTPREEKVLRLRFGLDDGRAR 325
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ N++RE +R+ E K L KL+HP+R L+ ++
Sbjct: 326 TLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYL 365
>gi|421505678|ref|ZP_15952613.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina DLHK]
gi|400343375|gb|EJO91750.1| RNA polymerase sigma factor RpoD [Pseudomonas mendocina DLHK]
Length = 615
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 166/310 (53%), Gaps = 28/310 (9%)
Query: 223 WLFKLMQPMKVFVQVKEQLQKDLGR-EPTDVELAEATNMSAAQVKKC---LEVGRA---- 274
W L + + + LQ D+ R + +L ++S A++K + +G A
Sbjct: 317 WAADLAKGKAKYAEALGNLQGDIQRCQQKLADLEAECSLSLAEIKDINRRMSIGEAKARR 376
Query: 275 ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLSTYG 334
A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ STY
Sbjct: 377 AKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 433
Query: 335 LFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEIIQG 393
+WIR AI RS+ + T R+P +++ ++ R ++L E+ R PT EE+ +
Sbjct: 434 TWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGREPTPEELGER 488
Query: 394 VNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP------ALLR 447
+ + ++ R+V+K +K +S+ + G ++ + D +E+ + P L+
Sbjct: 489 MEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTMQSPIDVATVESLK 543
Query: 448 LALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHP 507
A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E K L KL+HP
Sbjct: 544 EATREVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 603
Query: 508 TRVDYLRQHM 517
TR ++LR +
Sbjct: 604 TRSEHLRSFL 613
>gi|422011592|ref|ZP_16358389.1| RNA polymerase sigma factor RpoD [Actinomyces georgiae F0490]
gi|394764503|gb|EJF46279.1| RNA polymerase sigma factor RpoD [Actinomyces georgiae F0490]
Length = 531
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 86/248 (34%), Positives = 144/248 (58%), Gaps = 10/248 (4%)
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
G+ A+N L++ NLRLV+ + K+Y G +F DL Q G GLI A+++F+ + ++ S
Sbjct: 291 GQQAKNHLLEANLRLVVSLAKRYT---GRGMQFLDLIQEGNLGLIRAVEKFDYTKGYKFS 347
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI R+M + T R+P +++V ++ R + ++L +L R PT EE+
Sbjct: 348 TYATWWIRQAITRAMADQARTIRIPV-----HMVEVINKLARVQRQMLQDLGREPTPEEL 402
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQRQPALLRLA 449
+ ++++PE+ EV K + +SLH+ G + EF + I D + + + LL+
Sbjct: 403 AKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTLLQEQ 462
Query: 450 LDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMKLKHPTR 509
L VLD+L +E+ V+ RFGL +TL EI ++RE +R+ E K + KL+HP+R
Sbjct: 463 LHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSR 522
Query: 510 VDYLRQHM 517
LR ++
Sbjct: 523 SQVLRDYL 530
>gi|419285944|ref|ZP_13828111.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor
[Escherichia coli DEC10F]
gi|378128943|gb|EHW90323.1| sigma70 factor RNA polymerase, sigma 70 (sigma D) factor
[Escherichia coli DEC10F]
Length = 613
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 92/280 (32%), Positives = 155/280 (55%), Gaps = 29/280 (10%)
Query: 253 ELAEATNMSAAQVKKC---LEVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQ 305
++ E T ++ QVK + +G A A+ ++++ NLRLV+ + KKY G +F
Sbjct: 346 QIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFL 402
Query: 306 DLCQAGVKGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIM 364
DL Q G GL+ A+D+FE +R ++ STY +WIR AI RS+ + T R+P + +
Sbjct: 403 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM-----I 457
Query: 365 QVRGEIQRAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE- 423
+ ++ R ++L E+ R PT EE+ + + + ++ R+V+K +K +S+ + G ++
Sbjct: 458 ETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 517
Query: 424 ---EFINGIT---DVDGVENENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDR 477
+FI T +D E+ LR A DVL L +E+ V+R RFG+D D
Sbjct: 518 HLGDFIEDTTLELPLDSATTES------LRAATHDVLAGLTAREAKVLRMRFGIDMNTDH 571
Query: 478 TLGEIAGNLNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
TL E+ +++RE +R+ E K L KL+HP+R + LR +
Sbjct: 572 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFL 611
>gi|365901590|ref|ZP_09439424.1| sigma D (sigma 70) factor of RNA polymerase (fragment)
[Bradyrhizobium sp. STM 3843]
gi|365417664|emb|CCE11966.1| sigma D (sigma 70) factor of RNA polymerase (fragment)
[Bradyrhizobium sp. STM 3843]
Length = 430
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 93/261 (35%), Positives = 143/261 (54%), Gaps = 22/261 (8%)
Query: 265 VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEP 324
V+K R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE
Sbjct: 182 VQKGEREARQAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEY 238
Query: 325 KRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKR 383
+R ++ STY +WIR AI RS+ + T R+P +++ +I R ++L E+ R
Sbjct: 239 RRGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKIVRTSRQMLNEIGR 293
Query: 384 VPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVE 436
PT EE+ + + + E+ R+V+K +K LSL + G ++ +FI N I +D
Sbjct: 294 EPTPEELAEKLGMPLEKVRKVLKIAKEPLSLETPVGDEEDSHLGDFIEDKNAILPIDAAI 353
Query: 437 NENQRQPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKH 496
N LR VL SL P+E V+R RFG+ D TL E+ +++RE +R+
Sbjct: 354 QSN------LRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQI 407
Query: 497 EVKGLMKLKHPTRVDYLRQHM 517
E K L KLKHP+R LR +
Sbjct: 408 EAKALRKLKHPSRSRKLRSFL 428
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 98/314 (31%), Positives = 167/314 (53%), Gaps = 30/314 (9%)
Query: 220 EHTWLFKLMQPMKVFVQVKEQLQKDLGREPTDV-ELAEATNMSAAQVKKCLEV------- 271
+ +WL ++ + K + E + R +++ ++A AT M+ + ++ + +
Sbjct: 376 DDSWLPEMSRKDKKWAAFAENEADSVERIRSEISDIAAATGMALPEFRRIVNMVQKGERE 435
Query: 272 GRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPKRRFRLS 331
R A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +R ++ S
Sbjct: 436 ARIAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 492
Query: 332 TYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRVPTDEEI 390
TY +WIR AI RS+ + T R+P +++ ++ R + L E R PT EE+
Sbjct: 493 TYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLVRTSRQFLHEQGREPTPEEM 547
Query: 391 IQGVNISPERYREVMKASKPILSLHSRHGVTQE----EFI---NGITDVDGVENENQRQP 443
+ +++ E+ R+VMK +K +SL + G ++ +FI N I VD N
Sbjct: 548 AERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQAN---- 603
Query: 444 ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGLMK 503
L+ + VL SL P+E V+R RFG+ D TL E+ +++RE +R+ E K L K
Sbjct: 604 --LKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRK 661
Query: 504 LKHPTRVDYLRQHM 517
LKHP+R +R +
Sbjct: 662 LKHPSRSRKMRSFL 675
>gi|225351336|ref|ZP_03742359.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium
pseudocatenulatum DSM 20438 = JCM 1200]
gi|225157680|gb|EEG70963.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium
pseudocatenulatum DSM 20438 = JCM 1200]
Length = 472
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 87/256 (33%), Positives = 148/256 (57%), Gaps = 10/256 (3%)
Query: 264 QVKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFE 323
++K GR A++ L++ NLRLV+ + K+Y G F DL Q G GLI A+++F+
Sbjct: 223 ELKWAANDGRRAKDHLLEANLRLVVSLAKRYT---GRGMLFLDLIQEGNLGLIRAVEKFD 279
Query: 324 PKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELK 382
K+ F+ STY +WIR AI R+M + T RVP +++V ++ R + ++L +L
Sbjct: 280 WKKGFKFSTYATWWIRQAITRAMADQARTIRVP-----VHMVEVINKLSRVQRQMLQDLG 334
Query: 383 RVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQE-EFINGITDVDGVENENQR 441
R PT +E+ + +++ E+ +EV K + +SLH+ G + EF + I D D + +
Sbjct: 335 REPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAV 394
Query: 442 QPALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEVKGL 501
+LL+ VL++L P+E+ VI+ R+GL+ +TL +I ++RE +R+ E K +
Sbjct: 395 AFSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTM 454
Query: 502 MKLKHPTRVDYLRQHM 517
KL+HP+R LR +
Sbjct: 455 SKLRHPSRSQTLRDFL 470
>gi|410633994|ref|ZP_11344634.1| RNA polymerase primary sigma factor [Glaciecola arctica BSs20135]
gi|410146654|dbj|GAC21501.1| RNA polymerase primary sigma factor [Glaciecola arctica BSs20135]
Length = 608
Score = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 95/319 (29%), Positives = 171/319 (53%), Gaps = 34/319 (10%)
Query: 217 SSTEHTWLFKLMQPMKVFVQV----KEQLQKDLGREPTDVELAEATNMSAAQVKKC---L 269
+ T WLFK++ + + +E+L++ +G+ + E T + A +K +
Sbjct: 304 NETSTVWLFKILDSALPYAEEMRGHQEELERAIGKMNA---VEEETGLIIADIKDINRRM 360
Query: 270 EVGRA----ARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGVKGLITAIDRFEPK 325
+G A A+ ++++ NLRLV+ + KKY G +F DL Q G GL+ A+D+FE +
Sbjct: 361 SIGEAKARRAKKEMVEANLRLVISIAKKYTN---RGLQFLDLIQEGNIGLMKAVDKFEYR 417
Query: 326 RRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQRAKLELLFELKRV 384
R ++ STY +WIR AI RS+ + T R+P +++ ++ R ++L E+ R
Sbjct: 418 RGYKFSTYATWWIRQAITRSIADQARTIRIP-----VHMIETINKLNRISRQMLQEMGRE 472
Query: 385 PTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITDVDGVENENQRQP- 443
PT EE+ + + + ++ R+V+K +K +S+ + G ++ + D +E+ QP
Sbjct: 473 PTPEELSERMLMPEDKVRKVLKIAKEPISMETPIGDDEDSHLG-----DFIEDSTIVQPL 527
Query: 444 -----ALLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGNLNISREMVRKHEV 498
L+ A +VL L +E+ V+R RFG+D D TL E+ +++RE +R+ E
Sbjct: 528 DSATGGSLKDATQEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEA 587
Query: 499 KGLMKLKHPTRVDYLRQHM 517
K L KL+HP+R + L+ +
Sbjct: 588 KALRKLRHPSRSEQLKSFL 606
>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 = 140 bits (354), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 94/272 (34%), Positives = 151/272 (55%), Gaps = 25/272 (9%)
Query: 258 TNMSAAQ-----VKKCLEVGRAARNKLIKHNLRLVLFVIKKYFQDFANGPRFQDLCQAGV 312
N+ +AQ KK + A+++L + NLRLV+ + K+Y G F DL Q G
Sbjct: 109 VNLLSAQEEIELAKKIEQGDEVAKSRLAEANLRLVVSIAKRYV---GRGMLFLDLIQEGN 165
Query: 313 KGLITAIDRFEPKRRFRLSTYGLFWIRHAIIRSMTVSSFT-RVPFGLESTSIMQVRGEIQ 371
GLI A+++F+ + F+ STY +WIR AI R++ + T R+P + T +R +Q
Sbjct: 166 MGLIKAVEKFDFSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR--VQ 223
Query: 372 RAKLELLFELKRVPTDEEIIQGVNISPERYREVMKASKPILSLHSRHGVTQEEFINGITD 431
R +LL +L R P EEI + +++ PE+ RE++K ++ +SL + G + +
Sbjct: 224 R---QLLQDLGRDPAPEEIGEEMDLPPEKVREILKIAQEPVSLETPIGEEDDSHLG---- 276
Query: 432 VDGVENENQRQPA------LLRLALDDVLDSLKPKESLVIRQRFGLDGKGDRTLGEIAGN 485
D +E++ + P+ LL+ L+DVLD+L +E V+R RFGLD RTL E+
Sbjct: 277 -DFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKV 335
Query: 486 LNISREMVRKHEVKGLMKLKHPTRVDYLRQHM 517
++RE +R+ E K L KL+HP+R L+ M
Sbjct: 336 FGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 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
0.317 0.134 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,569,584,643
Number of Sequences: 23463169
Number of extensions: 312413639
Number of successful extensions: 1144324
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 7424
Number of HSP's successfully gapped in prelim test: 4315
Number of HSP's that attempted gapping in prelim test: 1109005
Number of HSP's gapped (non-prelim): 19287
length of query: 518
length of database: 8,064,228,071
effective HSP length: 147
effective length of query: 371
effective length of database: 8,910,109,524
effective search space: 3305650633404
effective search space used: 3305650633404
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 79 (35.0 bits)