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= 011992
(473 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|224068757|ref|XP_002326192.1| predicted protein [Populus trichocarpa]
gi|222833385|gb|EEE71862.1| predicted protein [Populus trichocarpa]
Length = 535
Score = 423 bits (1088), Expect = e-116, Method: Compositional matrix adjust.
Identities = 223/405 (55%), Positives = 285/405 (70%), Gaps = 35/405 (8%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEAGR LLSS PSFP+RT +K+SL+SS VL+ EQ+ PAV+S+PT+S A+HFP
Sbjct: 1 MEAGRTLLSSSPSFPTRTHLKNSLTSS--------VLILREQATPAVSSIPTTSTAQHFP 52
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
TSVLLQEQRDE+RPL ++FKED+ SQAT D R E E K+S +LDQLV++ E+Q
Sbjct: 53 TSVLLQEQRDEFRPLQNIFKEDRASQATLDRRKTEIGTSGHEGKDSDELDQLVENFEYQL 112
Query: 121 LHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASL 180
HWP WNL T++ +D EP + + LA++ALSASK AA L
Sbjct: 113 HHWPAYWNL----------------------TDKLIDVEPTNVINLAKRALSASKHAAFL 150
Query: 181 AENPKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRK 240
A+N + +++ TSS + LEEVK R L R+S R+ K + ETY+S+
Sbjct: 151 ADN----NTDLDNLASTSSSSFSLEEVKIVRSRRHLARQSLNRRAPKTKDLIFETYDSKS 206
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A ++K+LS+GFD NDPLRLFLWGPET++LLTA EEFELIAQIQDL+ LE K++L+SQFG
Sbjct: 207 ADIQKRLSQGFDPNDPLRLFLWGPETKQLLTAKEEFELIAQIQDLMNLEGVKNRLESQFG 266
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
REPTL+EWA+A+GLSC LK +LHSGN SREKLINANLR+VVH+AK+YQ RG+ L DLLQ
Sbjct: 267 REPTLVEWAQAVGLSCHVLKLQLHSGNRSREKLINANLRMVVHIAKRYQNRGLGLQDLLQ 326
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
EG++GLMKS+EKFKPQAGCRFA ++ K + QH R +
Sbjct: 327 EGTVGLMKSIEKFKPQAGCRFATYAYWWIRQTITKAIF-QHSRTI 370
Score = 136 bits (343), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 65/91 (71%), Positives = 77/91 (84%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+T +EIPD+SV KQLMR+H+R LL +L+ KER I+RLRFGIEDGK KSLSE+GN+FGLS
Sbjct: 444 ADTEIEIPDMSVAKQLMRKHIRGLLNILSLKERRIIRLRFGIEDGKQKSLSEIGNVFGLS 503
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLL 472
KERVRQLESRALY+LKQ +G YADLL
Sbjct: 504 KERVRQLESRALYKLKQCVGSHGLDAYADLL 534
>gi|297741628|emb|CBI32760.3| unnamed protein product [Vitis vinifera]
Length = 561
Score = 420 bits (1080), Expect = e-115, Method: Compositional matrix adjust.
Identities = 240/461 (52%), Positives = 311/461 (67%), Gaps = 31/461 (6%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEAG N+LSS PSFP RT + +SSSSVLM ++Q APAVAS+PT+ +AR FP
Sbjct: 1 MEAGTNILSSTPSFPPRTHFR---------NSSSSVLMLHDQVAPAVASIPTT-IARKFP 50
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
TSVLLQEQRDEYRP K+++T QAT + R +E +E+NS D +Q + + E Q
Sbjct: 51 TSVLLQEQRDEYRPFPQALKDERTFQATLEKRQMEI-VVSADEENSDDHNQYMVNFERQL 109
Query: 121 LHWPDLWNLSPPMKRGE-DPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAAS 179
L P LW P + GE P S M+S++ D E S+D +P D +ALA+KALSASK+A S
Sbjct: 110 LLQPGLWYSLPSSQTGEKSPFSSSIMKSITTDIENSMDVKPCDVLALAKKALSASKQAVS 169
Query: 180 LAENPKLNGAEFTD-----ISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHE 234
L EN KL GA+ D + SS PLEE K R LERRSKKR+ P+V HE
Sbjct: 170 LYENAKLLGADLEDSPSPSLGAISSPNLPLEE-KTVRSTRLLERRSKKRR--NPKVAVHE 226
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
+ SR+A V++K++EG+D DPLRLFLWGPETRKLLTA EE ELI QIQ+L+RLE+ K +
Sbjct: 227 NHGSRRAEVQRKINEGYDPKDPLRLFLWGPETRKLLTAKEESELIVQIQELMRLEEVKKR 286
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
LQS REPT++EWA+A+GLSC+ L+S+LHSGN SR+KLI ANLR+VVH+AKQYQGRG++
Sbjct: 287 LQSHLKREPTVVEWAEAVGLSCQVLQSQLHSGNRSRQKLIYANLRMVVHIAKQYQGRGLN 346
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVR------NLLTL 408
L DLLQEGSMGLM SVEKFKP AGCRFA+ +V+K + QH R N+ +L
Sbjct: 347 LQDLLQEGSMGLMNSVEKFKPNAGCRFASYAYWWIRQAVRKAIF-QHSRTIRLPENMYSL 405
Query: 409 LNPKERCIVRLRFGIEDG-KPKSLSEVGNIFGLSKERVRQL 448
L + R I++G + E+ G++ E++++L
Sbjct: 406 LGKVKEA---KRLFIQEGHHDPTKEEIAERVGITIEKLQRL 443
Score = 134 bits (336), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 62/92 (67%), Positives = 74/92 (80%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+TG+EIPD+SV KQLMRQHVRNLL +L PKER I+RLRFGI DG P++LSE+G +FG S
Sbjct: 470 ADTGIEIPDVSVAKQLMRQHVRNLLHVLTPKERRIIRLRFGIGDGIPRTLSEIGLVFGFS 529
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLE RAL++LKQ L Y DLL+
Sbjct: 530 KERVRQLEQRALHKLKQCLSSHGLESYTDLLV 561
>gi|359481391|ref|XP_002276710.2| PREDICTED: RNA polymerase sigma factor rpoD [Vitis vinifera]
Length = 572
Score = 416 bits (1069), Expect = e-113, Method: Compositional matrix adjust.
Identities = 239/463 (51%), Positives = 311/463 (67%), Gaps = 24/463 (5%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSS--VLMHNEQSAPAVASVPTSSVARH 58
MEAG N+LSS PSFP RT ++S SS + VLM ++Q APAVAS+PT+ +AR
Sbjct: 1 MEAGTNILSSTPSFPPRTHFRNSSSSGNAFFFYVVLFVLMLHDQVAPAVASIPTT-IARK 59
Query: 59 FPTSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEH 118
FPTSVLLQEQRDEYRP K+++T QAT + R +E +E+NS D +Q + + E
Sbjct: 60 FPTSVLLQEQRDEYRPFPQALKDERTFQATLEKRQMEI-VVSADEENSDDHNQYMVNFER 118
Query: 119 QFLHWPDLWNLSPPMKRGE-DPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEA 177
Q L P LW P + GE P S M+S++ D E S+D +P D +ALA+KALSASK+A
Sbjct: 119 QLLLQPGLWYSLPSSQTGEKSPFSSSIMKSITTDIENSMDVKPCDVLALAKKALSASKQA 178
Query: 178 ASLAENPKLNGAEFTD-----ISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTN 232
SL EN KL GA+ D + SS PLEE K R LERRSKKR+ P+V
Sbjct: 179 VSLYENAKLLGADLEDSPSPSLGAISSPNLPLEE-KTVRSTRLLERRSKKRR--NPKVAV 235
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
HE + SR+A V++K++EG+D DPLRLFLWGPETRKLLTA EE ELI QIQ+L+RLE+ K
Sbjct: 236 HENHGSRRAEVQRKINEGYDPKDPLRLFLWGPETRKLLTAKEESELIVQIQELMRLEEVK 295
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+LQS REPT++EWA+A+GLSC+ L+S+LHSGN SR+KLI ANLR+VVH+AKQYQGRG
Sbjct: 296 KRLQSHLKREPTVVEWAEAVGLSCQVLQSQLHSGNRSRQKLIYANLRMVVHIAKQYQGRG 355
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVR------NLL 406
++L DLLQEGSMGLM SVEKFKP AGCRFA+ +V+K + QH R N+
Sbjct: 356 LNLQDLLQEGSMGLMNSVEKFKPNAGCRFASYAYWWIRQAVRKAIF-QHSRTIRLPENMY 414
Query: 407 TLLNPKERCIVRLRFGIEDG-KPKSLSEVGNIFGLSKERVRQL 448
+LL + R I++G + E+ G++ E++++L
Sbjct: 415 SLLGKVKEA---KRLFIQEGHHDPTKEEIAERVGITIEKLQRL 454
Score = 133 bits (335), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 62/92 (67%), Positives = 74/92 (80%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+TG+EIPD+SV KQLMRQHVRNLL +L PKER I+RLRFGI DG P++LSE+G +FG S
Sbjct: 481 ADTGIEIPDVSVAKQLMRQHVRNLLHVLTPKERRIIRLRFGIGDGIPRTLSEIGLVFGFS 540
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLE RAL++LKQ L Y DLL+
Sbjct: 541 KERVRQLEQRALHKLKQCLSSHGLESYTDLLV 572
>gi|255556952|ref|XP_002519509.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
gi|223541372|gb|EEF42923.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
Length = 548
Score = 414 bits (1064), Expect = e-113, Method: Compositional matrix adjust.
Identities = 224/406 (55%), Positives = 280/406 (68%), Gaps = 24/406 (5%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
ME R LSSPP FPSRT K+SLSSS + + ++H EQ+ PAV S PT+S+AR+FP
Sbjct: 1 METARTFLSSPPPFPSRTHFKNSLSSSDAYVDNFVFMLH-EQAVPAVTSAPTTSIARNFP 59
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
TSVLLQEQRDE+RPLL++FKEDKT QAT D++ ++ E S LDQL+ H
Sbjct: 60 TSVLLQEQRDEFRPLLNIFKEDKTFQATVDTKQMDPGTSDQEGICSDVLDQLIL---HSN 116
Query: 121 LHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASL 180
L W SLTMQS++ +T+E + EP + + LARKALSASKEAA L
Sbjct: 117 LSW------------------SLTMQSITTNTDELMVVEPTNVIDLARKALSASKEAALL 158
Query: 181 AEN-PKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSR 239
A+ L+ T + T + LEEVK R LER+SK R+V+K + HE Y+SR
Sbjct: 159 AQKCANLDDTVSTGLEPTDLSNFSLEEVKTVRSTRRLERQSKNRRVTKTKEIFHEPYSSR 218
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
+A V+KK++EGFD DPLRLFLWGPET++LLTA EE ELI Q+QDL+ LE K K + QF
Sbjct: 219 RAGVQKKINEGFDPKDPLRLFLWGPETKQLLTAKEESELIGQVQDLMSLENVKEKFKLQF 278
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
GR+PTL+EWA A+GLS ++S+LHSGN SREKLINANLR+VVH+AKQYQGRG+SL DLL
Sbjct: 279 GRDPTLVEWADAVGLSYSVMQSQLHSGNRSREKLINANLRMVVHIAKQYQGRGLSLQDLL 338
Query: 360 QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
QEGSMGLMKS+EKFKPQ GCRFA +V+K + QH R +
Sbjct: 339 QEGSMGLMKSIEKFKPQVGCRFATYAYWWIRQTVRKAIF-QHSRTI 383
Score = 132 bits (333), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 62/92 (67%), Positives = 76/92 (82%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ VEIP++ V KQLMR+HV +LL +LNP+ER I+RLR+GIEDGK KSLSE+G++FGLS
Sbjct: 457 ADIEVEIPELCVAKQLMRKHVLSLLNILNPRERKIIRLRYGIEDGKKKSLSEIGSVFGLS 516
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLESRALY+LKQ L YADLL+
Sbjct: 517 KERVRQLESRALYKLKQCLASHGLEAYADLLV 548
>gi|356536959|ref|XP_003536999.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 571
Score = 365 bits (937), Expect = 3e-98, Method: Compositional matrix adjust.
Identities = 217/413 (52%), Positives = 279/413 (67%), Gaps = 15/413 (3%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
ME R + S P FP RT H S+ SSSS+SSVLM +EQ++P VAS ++ A++FP
Sbjct: 1 MEFARTMFCSSPPFPPRTH--HPWSTLPSSSSTSSVLMLHEQASPTVASWSSNFSAQNFP 58
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
SVLL EQRDEYRPLLHM KEDKTSQA +R ++T EE N+ + DQ+V D
Sbjct: 59 ASVLLPEQRDEYRPLLHMSKEDKTSQAMLSTRQMDTVTVH-EENNTENADQVVLDFRKHL 117
Query: 121 LHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASL 180
HWP+L S + GE + S T++ +S D E + F+ V+LA+KALS SK+ +S+
Sbjct: 118 HHWPNLQLTSSQI--GE-VAASSTLEHVSVDLERRPNGVQFNGVSLAKKALSTSKQESSV 174
Query: 181 AENPKLNGAEFTDISLTS-SLGYP-LEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNS 238
E+ K A+ SL S SL P + K R LERRSK+RKV K +V + ETY +
Sbjct: 175 VEDLKSIKADDVPFSLASTSLADPSIGRNKTVRSTRLLERRSKQRKVPKSKVIDDETYLA 234
Query: 239 RKASVKKKL------SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
RK ++KL +E D++DPLRLFLWGPET++LLT ++E +LI+QIQDL+RLE+ K
Sbjct: 235 RKDDAQEKLRAEKKKNEELDQDDPLRLFLWGPETKQLLTLEQESQLISQIQDLLRLEEVK 294
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+ LQSQFGREPT+ EWA+ GL+CR L+S+LHSGN SREKLI ANLR+VVHVAK YQGRG
Sbjct: 295 TNLQSQFGREPTMAEWAEGAGLNCRLLQSQLHSGNRSREKLIQANLRMVVHVAKSYQGRG 354
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
+SL DLLQEGSMGLMKSVEKF P AG RF N +++K + R H R +
Sbjct: 355 LSLQDLLQEGSMGLMKSVEKFNPLAGSRFGNYAFWWIRQAIRKAVFR-HSRTI 406
Score = 120 bits (302), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/92 (61%), Positives = 75/92 (81%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ VE D++V+KQLMR+HV N+L++L+PKER I+RLR+G EDG+ KSLSE+G+IFGLS
Sbjct: 480 ADPTVEATDVTVEKQLMRRHVLNVLSVLHPKERRIIRLRYGFEDGEQKSLSEIGDIFGLS 539
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLE RALY+LK+ L + Y DLL+
Sbjct: 540 KERVRQLEIRALYKLKKCLVKQGLDAYVDLLL 571
>gi|356548319|ref|XP_003542550.1| PREDICTED: RNA polymerase sigma factor rpoD [Glycine max]
Length = 574
Score = 359 bits (921), Expect = 2e-96, Method: Compositional matrix adjust.
Identities = 208/415 (50%), Positives = 272/415 (65%), Gaps = 16/415 (3%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
ME R + S P FP RT H ++ SSS+SVLM EQ++P VAS ++ A++FP
Sbjct: 1 MEFSRTMFCSSPPFPPRT---HHPWNTLPLSSSTSVLMLREQASPTVASWSSNFSAQNFP 57
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
SVLLQEQRDEYRPLLHM KEDKTSQA +R ++T EE N+ + DQ+V D
Sbjct: 58 ASVLLQEQRDEYRPLLHMSKEDKTSQAMLSTRQMDT-VMVHEENNTENADQVVLDFRKHL 116
Query: 121 LHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASL 180
+WP L NL + GE S S T+Q +S+D + + + V+LA+KALS SK+ +S+
Sbjct: 117 HYWPHLQNLLASSQTGE-ISASSTLQQVSSDLDRHTNGVQCNRVSLAKKALSTSKQGSSV 175
Query: 181 AENPKLNGAEFTDISL---TSSLGYP-LEEVKQFSQPRFLERRSKKRKVSKPQVTNHETY 236
E+ K A+ I ++ L P + K R LERRSK+RKV K +V + ETY
Sbjct: 176 VEDLKSIKADDDSIPFGLASTGLADPSIGRNKTVRSTRLLERRSKQRKVPKSKVIDDETY 235
Query: 237 NSRKAS------VKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK 290
+RK V+KK +E D+NDPL FL GPET++LLT ++E +LI+QIQDL+RLE+
Sbjct: 236 LARKDDAHEKLRVEKKKNEELDQNDPLCFFLRGPETKQLLTLEQESQLISQIQDLLRLEE 295
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
K+KLQSQFGREPT+ EWA+ +GL+CR L ++L SG+ SREKLI ANLR+VVHVAK YQG
Sbjct: 296 VKTKLQSQFGREPTMAEWAEGVGLNCRMLHAQLRSGSRSREKLIQANLRMVVHVAKSYQG 355
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
RG+SL DLLQEGSMGLMKSVEKF P G RF N +++K + R H R +
Sbjct: 356 RGLSLQDLLQEGSMGLMKSVEKFNPLVGSRFGNYAFWWIRQAIRKAVFR-HSRTI 409
Score = 123 bits (309), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 59/92 (64%), Positives = 75/92 (81%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ VE D+SV+KQLMRQHV N+L++L+PKER I+RLR+G EDG+ KSLSE+G+IFGLS
Sbjct: 483 ADPTVEATDVSVEKQLMRQHVLNVLSILHPKERRIIRLRYGFEDGEQKSLSEIGDIFGLS 542
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLE RALY+LK+ L + Y DLL+
Sbjct: 543 KERVRQLEIRALYKLKKCLVKQGLDAYVDLLL 574
>gi|449451030|ref|XP_004143265.1| PREDICTED: RNA polymerase sigma factor sigF, chloroplastic-like
[Cucumis sativus]
gi|449482444|ref|XP_004156283.1| PREDICTED: RNA polymerase sigma factor sigF, chloroplastic-like
[Cucumis sativus]
Length = 562
Score = 338 bits (867), Expect = 3e-90, Method: Compositional matrix adjust.
Identities = 204/412 (49%), Positives = 263/412 (63%), Gaps = 22/412 (5%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSS-------VLMHNEQSAPAVASVPTS 53
MEAG NLLSS F SR + L+ S SS++S S V M EQ++PA
Sbjct: 1 MEAGLNLLSSSSPFISRCHPRSFLAPSCSSAASPSSSSSSSSVYMFPEQASPA------- 53
Query: 54 SVARHFPTSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV 113
R+F TS L QEQ E RP + K+D++SQ T + R IE + ++E + D D L+
Sbjct: 54 ---RYFSTSFLSQEQHHECRPQSQILKDDRSSQMTLERRLIE-RSVPIDEGSRDDHDHLI 109
Query: 114 QDLEHQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSA 173
+L+HQ + WP L + PP++ E S+ +S + E V EP + +ALA+KALSA
Sbjct: 110 WELKHQAVEWPGLLSSWPPVQMEEYKISSIEKESYNAAGEMLVKDEPENVIALAKKALSA 169
Query: 174 SKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNH 233
SK+AA L + +L G SL SL +E + R +RRSKKRKV K T
Sbjct: 170 SKQAALLVDETELVGTSLDYSSLDDSLS---KEGRTVRSTRLQDRRSKKRKVPKHVTTID 226
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
E N R ++K SE FD NDPLRLFLWGPET+KLLTA EE ELI QIQDL+ L+ K+
Sbjct: 227 EISNFRGKDSRRKTSEKFDPNDPLRLFLWGPETKKLLTAQEESELIVQIQDLMILDNVKA 286
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+LQSQF REPTL+EWA+A+G++C+ L+S+LH +SREKLINANLR+VVH+AKQYQGRG+
Sbjct: 287 RLQSQFDREPTLVEWAEALGITCQHLQSQLHVFQTSREKLINANLRMVVHIAKQYQGRGL 346
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
SLHDLLQ GS+GLMKSVEKFKPQAGCRF + S+ K + QH R +
Sbjct: 347 SLHDLLQVGSLGLMKSVEKFKPQAGCRFGSYAYWWIRHSITKAIF-QHSRTI 397
Score = 127 bits (320), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 57/91 (62%), Positives = 78/91 (85%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A++ V+ PD+SV+++LMR+H+RNLL++L+PKER I+RLRFGIEDG+ K+L E+GN+FGLS
Sbjct: 471 ADSEVDTPDVSVERELMRRHIRNLLSILSPKERRIIRLRFGIEDGREKTLLEIGNMFGLS 530
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLL 472
KERVRQLE+RALY+LK+ + YADLL
Sbjct: 531 KERVRQLENRALYKLKRCCNSQGLGAYADLL 561
>gi|312282671|dbj|BAJ34201.1| unnamed protein product [Thellungiella halophila]
Length = 547
Score = 327 bits (839), Expect = 6e-87, Method: Compositional matrix adjust.
Identities = 198/391 (50%), Positives = 247/391 (63%), Gaps = 38/391 (9%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEA RNL+SS PSF ++T +K S SS SS V++H + + P V S +S++RHFP
Sbjct: 1 MEATRNLVSSSPSFQTKTHLK-----SGFSSPSSVVMLHEQTATPVVNSRHLTSLSRHFP 55
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV-----QD 115
SVL QE R+E +PL H +ED+TSQ T + R D+LV +
Sbjct: 56 ASVLSQELREESKPLSHALREDRTSQLTLERRQ---------------FDELVSSREDEK 100
Query: 116 LEHQFLHWPDLWNL--SPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSA 173
E Q LH LWNL SP + P+V S DA+ D VALA+KALSA
Sbjct: 101 FEQQLLHSAGLWNLLISPLTTEKQLPAV----------VSPSADADLCDLVALAQKALSA 150
Query: 174 SKEAASLAENPKLNGAEFT-DISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTN 232
SK+AA L EN + + + D TSS E+ R LERR+K R+ K +
Sbjct: 151 SKQAALLVENSEADPPDNPRDSLSTSSSMSLPEKGTIVRSKRQLERRAKNRRAPKSNNMD 210
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
E Y +K + KKK+ +GFD +D L+LFLWGPET++LLTA EE ELIA IQ LI+LEK K
Sbjct: 211 SEGYVPQKINAKKKMKQGFDTDDALQLFLWGPETKQLLTAKEEAELIAHIQHLIKLEKVK 270
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+KL+SQ G EPT+ EWA+A+GLS LKSE+H G SSREKLI ANLRLVVH+AKQYQ RG
Sbjct: 271 TKLESQNGCEPTIGEWAEAMGLSSPVLKSEIHRGRSSREKLITANLRLVVHIAKQYQNRG 330
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA
Sbjct: 331 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFAT 361
Score = 128 bits (322), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 59/91 (64%), Positives = 75/91 (82%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++G+E P +SV KQLMR HVRNLL +L+PKE+ I++LRFGI+ GK +SLSE+G I+GLSK
Sbjct: 457 DSGIETPSMSVGKQLMRNHVRNLLNVLSPKEKRIIKLRFGIDGGKQRSLSEIGEIYGLSK 516
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLLI 473
ERVRQLESRALYRLKQ++ YADLL+
Sbjct: 517 ERVRQLESRALYRLKQNMSSHGLNAYADLLV 547
>gi|297827203|ref|XP_002881484.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata]
gi|297327323|gb|EFH57743.1| RNA polymerase sigma-70 factor [Arabidopsis lyrata subsp. lyrata]
Length = 546
Score = 324 bits (830), Expect = 8e-86, Method: Compositional matrix adjust.
Identities = 196/390 (50%), Positives = 251/390 (64%), Gaps = 39/390 (10%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEA RNL+SS PSF ++T +K + SS SS V++H + + P V S +S++RHFP
Sbjct: 1 MEATRNLVSSSPSFQTKTHLK------SYSSPSSVVMLHEQTTTPVVNSRHLNSLSRHFP 54
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV-----QD 115
SVL QE R+E RPL H +ED+TSQ T + R D+LV +
Sbjct: 55 ASVLSQEPREESRPLSHALREDRTSQLTLERRQ---------------FDELVSSREDEK 99
Query: 116 LEHQFLHWPDLWNL--SPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSA 173
E Q LH LWNL SP + P V + DAE D VALA+KALSA
Sbjct: 100 FEQQLLHSAGLWNLLISPLTAETKLPPVVPPL----------ADAELCDIVALAQKALSA 149
Query: 174 SKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFSQP-RFLERRSKKRKVSKPQVTN 232
SK+AA LA++ + N ++ T SL++S L E + R LERR+K R+ K +
Sbjct: 150 SKQAALLADDTEANPSDNTRGSLSTSSSMSLPEKGAIVRSKRQLERRAKNRRAPKSNDVD 209
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
+E Y +K + KKK +G D +D L+LFLWGPET++LLTA EE ELI+ IQ L++LEK K
Sbjct: 210 NEGYVPQKINAKKKFKQGVDTDDALQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVK 269
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+KL+SQ G EPT+ EWA+A+G+S DLKSE+H G SSREKLI ANLRLVVH+AKQYQ RG
Sbjct: 270 TKLESQNGCEPTIGEWAEAMGISSPDLKSEIHRGRSSREKLITANLRLVVHIAKQYQNRG 329
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA
Sbjct: 330 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFA 359
Score = 130 bits (326), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 59/91 (64%), Positives = 75/91 (82%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++G+E P +SV KQ+MR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G I+GLSK
Sbjct: 456 DSGIETPTMSVGKQMMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSK 515
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLLI 473
ERVRQLESRALYRLKQ + + YADLL+
Sbjct: 516 ERVRQLESRALYRLKQHMNSHGLHAYADLLV 546
>gi|18404292|ref|NP_565856.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana]
gi|75173811|sp|Q9LD95.1|SIGF_ARATH RecName: Full=RNA polymerase sigma factor sigF, chloroplastic;
Short=Sigma factor F; Short=Sigma-F; AltName:
Full=Protein SINGLET OXYGEN-LINKED DEATH ACTIVATOR 8;
AltName: Full=RNA polymerase sigma factor sig6;
Short=Atsig6; Short=Sigma factor 6; Flags: Precursor
gi|7209640|dbj|BAA92288.1| SigF [Arabidopsis thaliana]
gi|7688083|emb|CAB89775.1| sigma factor-like protein [Arabidopsis thaliana]
gi|16604647|gb|AAL24116.1| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana]
gi|20197948|gb|AAD31584.2| putative RNA polymerase sigma-70 factor [Arabidopsis thaliana]
gi|20259557|gb|AAM14121.1| putative RNA polymerase sigma-70 factor protein [Arabidopsis
thaliana]
gi|330254238|gb|AEC09332.1| RNApolymerase sigma-subunit F [Arabidopsis thaliana]
Length = 547
Score = 315 bits (806), Expect = 4e-83, Method: Compositional matrix adjust.
Identities = 193/390 (49%), Positives = 248/390 (63%), Gaps = 38/390 (9%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
MEA RNL+SS PSF ++T +K S+ SS SS V++H++ + P V S +S++RHFP
Sbjct: 1 MEATRNLVSSSPSFQTKTHLK-----SSYSSPSSVVMLHDQTTTPVVNSRHLNSLSRHFP 55
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV-----QD 115
SVL QE R+E RPL H ++D+TSQ T + R D+LV +
Sbjct: 56 ASVLSQEPREESRPLSHALRDDRTSQLTLERRQ---------------FDELVSSREDEK 100
Query: 116 LEHQFLHWPDLWNL--SPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSA 173
E Q LH LWNL SP + P+V + DAE D VALA+KALSA
Sbjct: 101 FEQQLLHSTGLWNLLISPLTSETKLPAVVSPL----------ADAELCDVVALAQKALSA 150
Query: 174 SKEAASLAENPKLNGAE-FTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTN 232
SK+AA L ++ + N ++ D TSS E+ R LERR+K R+ K +
Sbjct: 151 SKQAALLVDDTEANPSDNIKDSLSTSSSMSLPEKGNIVRSKRQLERRAKNRRAPKSNDVD 210
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
E Y +K S KKK +G D +D L+LFLWGPET++LLTA EE ELI+ IQ L++LEK K
Sbjct: 211 DEGYVPQKTSAKKKYKQGADNDDALQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVK 270
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+KL+SQ G EPT+ EWA+A+G+S LKS++H G SSREKLI ANLRLVVH+AKQYQ RG
Sbjct: 271 TKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRG 330
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA
Sbjct: 331 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFA 360
Score = 131 bits (329), Expect = 8e-28, Method: Compositional matrix adjust.
Identities = 60/91 (65%), Positives = 76/91 (83%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++G+E P +SV KQLMR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G I+GLSK
Sbjct: 457 DSGIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSK 516
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLLI 473
ERVRQLESRALYRLKQ++ + YADLL+
Sbjct: 517 ERVRQLESRALYRLKQNMNSHGLHAYADLLV 547
>gi|357510769|ref|XP_003625673.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
gi|355500688|gb|AES81891.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
Length = 557
Score = 300 bits (768), Expect = 9e-79, Method: Compositional matrix adjust.
Identities = 189/371 (50%), Positives = 244/371 (65%), Gaps = 34/371 (9%)
Query: 33 SSSVLMH-NEQSAPAVASVPTSSVARHFPTSVLLQEQRDEYRPLLHMFKED-KTSQATSD 90
S SV+M ++Q+APA++S PT+ FPTSVLLQE RDEY+PLLH ED K QAT +
Sbjct: 15 SPSVMMPPHDQAAPALSSWPTT-----FPTSVLLQEHRDEYKPLLHTCNEDNKPPQATLN 69
Query: 91 SR-----NIETEAFFVEEKNSGDLDQLVQDLEHQF---LHWPDLWNLSPPMKRGEDPSVS 142
+R +I + + G +D V + HQ H +L SP E+ VS
Sbjct: 70 TRVTDMTSICEKIITGDGDGDGHVDVSVHNCMHQLHLRCHLQNLLASSP-----EEDFVS 124
Query: 143 LTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASLAENPKLNGAEFTD---ISLT-S 198
+ S S+ T D +DA+ LA++ALSASK+AA++A+ KL + D + L S
Sbjct: 125 SSSSSSSSSTMLPADGFQWDALTLAKQALSASKQAAAVAQELKLVKIDDDDSLPLGLADS 184
Query: 199 SLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVK------KKLSEGFD 252
SLG + K R ERRSK+RKVS +V + E Y ++K++V+ KKL EG D
Sbjct: 185 SLG----KNKIVRSIRLKERRSKQRKVSNSKVLDDEMYLTKKSNVQRRLRLEKKLKEGLD 240
Query: 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI 312
N LRLFLW PET++LL+ +EE +LIAQIQDL +L++ K KLQS FGREPTL EWA +
Sbjct: 241 GNHALRLFLWSPETKQLLSIEEESQLIAQIQDLFKLKETKIKLQSHFGREPTLAEWADGV 300
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GLSCRDL+ LH GN S++KLI+ANLRLVVH+AK YQGRG+SL DLLQEGSMGLM+SVEK
Sbjct: 301 GLSCRDLQKRLHCGNRSKDKLIHANLRLVVHIAKYYQGRGLSLQDLLQEGSMGLMRSVEK 360
Query: 373 FKPQAGCRFAN 383
FKPQAGCRF+
Sbjct: 361 FKPQAGCRFST 371
Score = 116 bits (291), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 54/92 (58%), Positives = 71/92 (77%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A++ +EIP++ V KQLMR HVRNLL +L PKER ++RLRFGIEDG KSL+E+G + G+
Sbjct: 466 ADSSIEIPNVCVAKQLMRSHVRNLLGILPPKERKVLRLRFGIEDGYEKSLTEIGKVLGVC 525
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLES+AL +LKQ L + Y DL++
Sbjct: 526 KERVRQLESQALNKLKQCLVSQQLDAYVDLIV 557
>gi|357440353|ref|XP_003590454.1| RNA polymerase sigma factor [Medicago truncatula]
gi|355479502|gb|AES60705.1| RNA polymerase sigma factor [Medicago truncatula]
Length = 567
Score = 300 bits (767), Expect = 1e-78, Method: Compositional matrix adjust.
Identities = 180/397 (45%), Positives = 254/397 (63%), Gaps = 30/397 (7%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
ME+ R + S P P RT ++L SS S +SVLM EQ AP V + TS +++FP
Sbjct: 1 MESARTMFCSSPLCPPRTHHWNTLPSS----SYTSVLMLREQVAPTVTAWCTSYSSQNFP 56
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKN-SGDLDQLVQDLEHQ 119
TSVLLQEQ DEYRPLLH+ K+DKT QAT ++R ++ + V+EKN + + DQ+ +D
Sbjct: 57 TSVLLQEQCDEYRPLLHISKKDKTCQATLNTRQMDMVS--VQEKNDTSNTDQVARDFRQH 114
Query: 120 FLHWPDLWNLSPPMKRGE-DPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAA 178
P L NL + GE D S +L + D+ +AV+L+++A S +++
Sbjct: 115 LHLLPRLENLLTSSQTGEMDGSSTL----------QHADSLQCNAVSLSKQAASVAEDLI 164
Query: 179 SL-AENPKLNGAEF-----TDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTN 232
S+ A+ N F + ++ +SS L K R ERR+K+RKV K +V +
Sbjct: 165 SIKADEDADNSIPFGLVPPSCLASSSSAEPLLGGNKTVRSTRLRERRAKERKVPKLKVKD 224
Query: 233 HETY------NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
ETY K V+KK+S+G +++DPL FL PE+++LLT+++E +L+ QIQ+L+
Sbjct: 225 KETYLDGKDAAEEKLQVQKKISKGMNQSDPLNKFLQSPESKQLLTSEQESQLVVQIQELL 284
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
RLE K+ LQSQFGREPT+ EWA+ GL+CR +K++L GN SREKLI ANLRLV ++AK
Sbjct: 285 RLEDLKTSLQSQFGREPTMAEWAEGAGLNCRKMKAQLRCGNRSREKLIQANLRLVHYIAK 344
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
YQGRG+S+ DLLQEGS GL+KS++KFK QAGCRFA+
Sbjct: 345 SYQGRGLSIEDLLQEGSTGLIKSIKKFKTQAGCRFAS 381
Score = 128 bits (321), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 61/92 (66%), Positives = 75/92 (81%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ +E P++SV KQLMR+HV N+L +L PKER I+RLRFG EDG+ KSLSE+G IFGLS
Sbjct: 476 ADCAIESPNMSVAKQLMRRHVLNVLNILRPKERRIIRLRFGFEDGEEKSLSEIGEIFGLS 535
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
+ERVRQLESRALY+LK+ L G+ YADLLI
Sbjct: 536 RERVRQLESRALYKLKKYLVGQGLDAYADLLI 567
>gi|6273430|emb|CAB60192.1| putative sigma-like transcription factor [Arabidopsis thaliana]
Length = 487
Score = 269 bits (688), Expect = 2e-69, Method: Compositional matrix adjust.
Identities = 162/325 (49%), Positives = 204/325 (62%), Gaps = 33/325 (10%)
Query: 66 QEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLV-----QDLEHQF 120
QE R+E RPL H ++D+TSQ T + R D+LV + E Q
Sbjct: 1 QEPREESRPLSHALRDDRTSQLTLERRQ---------------FDELVSSREDEKFEQQL 45
Query: 121 LHWPDLWNL--SPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAA 178
LH LWNL SP + P+V + DAE D VALA+KALSASK+AA
Sbjct: 46 LHSTGLWNLLISPLTSETKLPAVVSPL----------ADAELCDVVALAQKALSASKQAA 95
Query: 179 SLAENPKLNGAE-FTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYN 237
L ++ + N ++ D TSS E+ R LERR+K R+ K + E Y
Sbjct: 96 LLVDDTEANPSDNIKDSLSTSSSMSLPEKGNIVRSKRQLERRAKNRRAPKSNDVDDEGYV 155
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
+K S KKK +G D +D L+LFLWGPET++LLTA EE ELI+ IQ L++LEK K+KL+S
Sbjct: 156 PQKTSAKKKYKQGADNDDALQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLES 215
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
Q G EPT+ EWA+A+G+S LKS++H G SSREKLI ANLRLVVH+AKQYQ RG++ D
Sbjct: 216 QNGCEPTIGEWAEAMGISSPVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQD 275
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFA 382
LLQEGSMGLMKSVEKFKPQ+GCRFA
Sbjct: 276 LLQEGSMGLMKSVEKFKPQSGCRFA 300
Score = 130 bits (328), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 60/91 (65%), Positives = 76/91 (83%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++G+E P +SV KQLMR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G I+GLSK
Sbjct: 397 DSGIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSK 456
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLLI 473
ERVRQLESRALYRLKQ++ + YADLL+
Sbjct: 457 ERVRQLESRALYRLKQNMNSHGLHAYADLLV 487
>gi|356514352|ref|XP_003525870.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 360
Score = 237 bits (604), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 121/198 (61%), Positives = 151/198 (76%), Gaps = 7/198 (3%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL------SEGFDRNDPLRLFLWGPETR 267
R LERRSK+RKV K +V + ETY +RK ++KL +E D++DPLRLFLWGPET+
Sbjct: 79 RLLERRSKQRKVPKSKVIDDETYLARKDDAQEKLRAEKKKNEEHDQDDPLRLFLWGPETK 138
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT ++E +LI+QIQDL+RLE+ K+ LQSQFGREPT+ EWA+ GL+CR L+S+LHSG
Sbjct: 139 QLLTLEQESQLISQIQDLLRLEEVKTNLQSQFGREPTMAEWAEGAGLNCRLLQSQLHSGI 198
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
SREKLI ANLR+VVHVAK YQGRG+SL DLLQEGSMGLMKSVEKF P AG RF N
Sbjct: 199 RSREKLIQANLRMVVHVAKSYQGRGLSLQDLLQEGSMGLMKSVEKFNPLAGSRFGNYAFW 258
Query: 388 IPDISVQKQLMRQHVRNL 405
+++K + R H R +
Sbjct: 259 WIRQAIRKAVFR-HSRTI 275
>gi|388501386|gb|AFK38759.1| unknown [Lotus japonicus]
Length = 311
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 96/150 (64%), Positives = 115/150 (76%), Gaps = 9/150 (6%)
Query: 259 LFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRD 318
+FLWGPET+KLLT +EE +LI+QIQ+L RLE+ K +LQSQFGREPT+ EWA +GLSC
Sbjct: 1 MFLWGPETKKLLTFEEESQLISQIQNLFRLEEVKIRLQSQFGREPTMAEWADGVGLSCYA 60
Query: 319 LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
L+++L SG S+EKLI+ANLR+VVHVAK Y GRG+S DLLQEGSMGLMKSVEKFKPQAG
Sbjct: 61 LQTQLRSGTRSKEKLIHANLRMVVHVAKNYLGRGLSFQDLLQEGSMGLMKSVEKFKPQAG 120
Query: 379 CRFANTGVEIPDISVQKQLMRQHVRNLLTL 408
CRFA S +RQ +R L L
Sbjct: 121 CRFA---------SYAYWWIRQTIRRALFL 141
Score = 127 bits (318), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 61/92 (66%), Positives = 72/92 (78%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+T +E PD+ V KQLMR+H RNLL LNP+ER I+RLRFGIEDG KSLSE+G +FGLS
Sbjct: 220 ADTAIETPDVYVAKQLMRRHARNLLHTLNPRERRIIRLRFGIEDGYEKSLSEIGTVFGLS 279
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLESRAL +LKQ L YA+LL+
Sbjct: 280 KERVRQLESRALDKLKQCLASHGLDAYANLLV 311
>gi|413932354|gb|AFW66905.1| hypothetical protein ZEAMMB73_346249 [Zea mays]
Length = 542
Score = 167 bits (423), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 79/168 (47%), Positives = 112/168 (66%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTAD 273
R LERRSKKR + N + + K K D ++P RLFL ET + LTA
Sbjct: 187 RLLERRSKKRNGGHRALDNGVACSGVNSKRKDKFGRVLDPDEPFRLFLRDRETTEFLTAK 246
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE ++ +QIQ+L++LE + LQ+Q GREPT+ EWA+A+G+SCR+L+S + +G REK+
Sbjct: 247 EEKQMFSQIQNLMKLEGAQRNLQAQCGREPTVEEWAQAVGMSCRELQSCVRTGRRCREKM 306
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF
Sbjct: 307 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRF 354
Score = 91.7 bits (226), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 68/88 (77%), Gaps = 1/88 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+E P++SV + +MRQ VR+ LT +L+P+E+ I+ RFGI DG+PK+L +G+++GLSKER
Sbjct: 454 IEGPEVSVDRLMMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKER 513
Query: 445 VRQLESRALYRLKQSLGGKASYGYADLL 472
+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 514 IRQVQNKALDKLRNSISAQGFHVYFDLL 541
>gi|194696078|gb|ACF82123.1| unknown [Zea mays]
gi|323388703|gb|ADX60156.1| SIGMA70-like transcription factor [Zea mays]
gi|413932355|gb|AFW66906.1| sigma factor SIG6 [Zea mays]
Length = 541
Score = 167 bits (422), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 79/168 (47%), Positives = 112/168 (66%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTAD 273
R LERRSKKR + N + + K K D ++P RLFL ET + LTA
Sbjct: 186 RLLERRSKKRNGGHRALDNGVACSGVNSKRKDKFGRVLDPDEPFRLFLRDRETTEFLTAK 245
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE ++ +QIQ+L++LE + LQ+Q GREPT+ EWA+A+G+SCR+L+S + +G REK+
Sbjct: 246 EEKQMFSQIQNLMKLEGAQRNLQAQCGREPTVEEWAQAVGMSCRELQSCVRTGRRCREKM 305
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF
Sbjct: 306 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRF 353
Score = 91.7 bits (226), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 68/88 (77%), Gaps = 1/88 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+E P++SV + +MRQ VR+ LT +L+P+E+ I+ RFGI DG+PK+L +G+++GLSKER
Sbjct: 453 IEGPEVSVDRLMMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKER 512
Query: 445 VRQLESRALYRLKQSLGGKASYGYADLL 472
+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 513 IRQVQNKALDKLRNSISAQGFHVYFDLL 540
>gi|357113236|ref|XP_003558410.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 564
Score = 166 bits (419), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 121/388 (31%), Positives = 194/388 (50%), Gaps = 46/388 (11%)
Query: 14 FPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFPTSVLLQEQRDEYR 73
FP+ + S +SS + S +S +MH+ S +S A H+ S++ +EQ
Sbjct: 13 FPTSSPNFRSTASSPTPSRTSVPMMHD--------STGRASTACHYSPSLVAEEQVHGSV 64
Query: 74 PLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQFLHWPDLWNLSPPM 133
L + + ++ + + EE + + ++DL+ Q ++ L
Sbjct: 65 SLKGEKALLELLLDMALEQHTQGKKVTGEEGAESEFESYLRDLQRQVIYQQVL------- 117
Query: 134 KRGEDPSVSLTMQSLSN-DTEESVDAEPFDAVALARKALSASKEAASLAENPKLNGAEFT 192
GE+ + + S + + ++D A L KE A L E + AE
Sbjct: 118 --GEEYNSTSVSTSTLSIKSSATLDLGATSATVL--------KEVAFLPEESGTSAAEL- 166
Query: 193 DISLTSSLGYPLEEVKQFSQ-------PRFLERRSKKRKVSKPQVTNH------------ 233
D++L L K S+ R LERRSKKR + T+
Sbjct: 167 DVTLLHRLDLNHSYEKLLSKGQVFIRSKRLLERRSKKRDAPRASSTDALCGVVSSTDALC 226
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
+++K KK D ++P +LFL PET + LTA EE +L +++Q+L++LE+ +
Sbjct: 227 GVVDTKKKEKSKKYGRVLDPDEPFKLFLRDPETTEFLTAKEEKQLFSEVQNLMKLEEAQR 286
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+L++Q GREP + EWAKA+G+SC+DL+S +H G REK+ +N RLV+HVA++YQG G+
Sbjct: 287 RLEAQCGREPAIEEWAKAVGMSCKDLQSSIHIGRRCREKMARSNFRLVIHVARKYQGYGL 346
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+ DL+Q+G GLMK+ EKF P GCRF
Sbjct: 347 DIEDLVQDGCCGLMKTFEKFNPSKGCRF 374
Score = 92.0 bits (227), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 45/102 (44%), Positives = 69/102 (67%), Gaps = 4/102 (3%)
Query: 375 PQAGCRFA----NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
P G F + +E PD+ V + +MRQ VR+ L +L+ +E+ I+ RFGI DG+PK+
Sbjct: 459 PDDGVTFQEITEDPNIEPPDLVVDRMMMRQQVRDFLGILSTREKEIIEHRFGIYDGEPKT 518
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
L +G+++GLSKER+RQL++RAL +LK+S+ + Y DLL
Sbjct: 519 LHVIGDMYGLSKERIRQLQNRALDKLKRSVSNQGFDVYLDLL 560
>gi|162458769|ref|NP_001105507.1| sigma-like factor6 [Zea mays]
gi|4336610|gb|AAD17856.1| sigma factor SIG6 [Zea mays]
Length = 541
Score = 159 bits (403), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 77/168 (45%), Positives = 109/168 (64%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTAD 273
R LERRSKKR + N + + K K + RLFL ET + LTA
Sbjct: 186 RLLERRSKKRNGGHRALDNGVACSGVNSKRKDKFGRVLIQTSLFRLFLRDRETTEFLTAK 245
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE ++ +QIQ+L++LE + LQ+Q GREPT+ EWA+A+G+SCR+L+S + +G REK+
Sbjct: 246 EEKQMFSQIQNLMKLEGAQRNLQAQCGREPTVEEWAQAVGMSCRELQSCVRTGRRCREKM 305
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF
Sbjct: 306 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRF 353
Score = 91.7 bits (226), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 68/88 (77%), Gaps = 1/88 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+E P++SV + +MRQ VR+ LT +L+P+E+ I+ RFGI DG+PK+L +G+++GLSKER
Sbjct: 453 IEGPEVSVDRLMMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKER 512
Query: 445 VRQLESRALYRLKQSLGGKASYGYADLL 472
+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 513 IRQVQNKALDKLRNSISAQGFHVYFDLL 540
>gi|115475493|ref|NP_001061343.1| Os08g0242800 [Oryza sativa Japonica Group]
gi|30698490|dbj|BAC76602.1| Sig6 [Oryza sativa Japonica Group]
gi|40253642|dbj|BAD05586.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
gi|40253689|dbj|BAD05631.1| Sig6, plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
gi|113623312|dbj|BAF23257.1| Os08g0242800 [Oryza sativa Japonica Group]
gi|215712228|dbj|BAG94355.1| unnamed protein product [Oryza sativa Japonica Group]
Length = 572
Score = 150 bits (378), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 78/188 (41%), Positives = 118/188 (62%), Gaps = 2/188 (1%)
Query: 214 RFLERRSKKRKVSKPQVTNHETY--NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLT 271
R LERRSK+R + + + NS+K KK + ++P +LFL ET + LT
Sbjct: 216 RLLERRSKRRYAPRASIADVSCSADNSKKKEKSKKYGRVLEPDEPFKLFLRDRETTEFLT 275
Query: 272 ADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSRE 331
A EE L ++IQ L+++E+ KL+ Q GREPTL EWA+A+G+S ++L+S + +G RE
Sbjct: 276 AKEERHLFSKIQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMSSKELQSSIRTGRRCRE 335
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDI 391
K+ +N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF
Sbjct: 336 KMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQ 395
Query: 392 SVQKQLMR 399
S++K + +
Sbjct: 396 SIKKSIFK 403
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/87 (52%), Positives = 66/87 (75%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
VE PD+SV + +MRQ VR+ L +L+P+E+ I+ RFGI DG+PK+L +G++FGLSKER+
Sbjct: 485 VEPPDLSVDRMMMRQQVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERI 544
Query: 446 RQLESRALYRLKQSLGGKASYGYADLL 472
RQL++RAL +LK+S + Y DLL
Sbjct: 545 RQLQNRALEKLKRSASLQGFDVYFDLL 571
>gi|407327703|dbj|BAM45409.1| sigma factor 2 [Marchantia polymorpha]
Length = 615
Score = 149 bits (376), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 83/212 (39%), Positives = 125/212 (58%), Gaps = 13/212 (6%)
Query: 245 KKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT 304
KK +D DP+R +L KLLT+ EE EL IQDL+R+E K+ L+ Q GREPT
Sbjct: 293 KKSQPAYDPQDPVRAYLRDIGKTKLLTSSEEIELAEGIQDLLRVESVKNDLREQMGREPT 352
Query: 305 LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSM 364
L+EWAKA+G L+S + SG + +++++N+NLRLVV +AK+YQGRG+++ DL+QEGSM
Sbjct: 353 LMEWAKAVGTERHSLESRIKSGQACKDRMVNSNLRLVVSIAKRYQGRGMTIQDLIQEGSM 412
Query: 365 GLMKSVEKFKPQAGCRFANTG------VEIPDISVQKQLMR--QHVRNLLTLLNPKERCI 416
GL++ EKF G +F+ I+ Q + +R HV LL+ + + +
Sbjct: 413 GLIRGAEKFDHTRGFKFSTYAHWWIRQAITRAIADQSRTIRLPVHVYELLSRITKAKSML 472
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
E G+ EV + GLS E+++ +
Sbjct: 473 -----AAEHGRAPRDEEVAELVGLSIEKLKMV 499
Score = 83.6 bits (205), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 57/207 (27%), Positives = 105/207 (50%), Gaps = 34/207 (16%)
Query: 266 TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + L + +L+ R+ K KS L ++ GR P E A+ +GLS LK +
Sbjct: 442 TRAIADQSRTIRLPVHVYELLSRITKAKSMLAAEHGRAPRDEEVAELVGLSIEKLKMVIK 501
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
S S + + V K + ++G + +
Sbjct: 502 SARSPKS--------MEFPVGKN------------NDTTLGEV-------------IPDK 528
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
++ P+ ++ K+L++Q + +L L+P+ER ++RLR+G++DG+ ++L E+GN+F +++ER
Sbjct: 529 DIDSPEEAISKRLLKQDLDVVLHTLSPRERDVLRLRYGLDDGRMRTLEEIGNVFKVTRER 588
Query: 445 VRQLESRALYRLKQSLGGKASYGYADL 471
+RQ+E++AL +L+Q A Y DL
Sbjct: 589 IRQIEAKALRKLRQPSRNTALREYLDL 615
>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 = 142 bits (357), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 77/205 (37%), Positives = 124/205 (60%), Gaps = 13/205 (6%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
D +DP+R +L KLLTA EE +L QIQDL++LE KS L+ + GR T+ EW++A
Sbjct: 259 DPSDPVRAYLRDIGRTKLLTAREEVDLSHQIQDLLKLENIKSNLEREIGRNATIGEWSRA 318
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+G+ ++ L G +++K++N+NLRLVV +AK YQGRG++L DL+QEGSMGL++ E
Sbjct: 319 VGMEQNAFEARLKKGRFAKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAE 378
Query: 372 KFKPQAGCRFANTG------VEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGI 423
KF P G +F+ I+ Q + +R H+ +++ +N +R +V+
Sbjct: 379 KFDPTKGFKFSTYAHWWIRQAVTRSIADQSRTIRLPIHLYEVISRINKAKRMLVQ----- 433
Query: 424 EDGKPKSLSEVGNIFGLSKERVRQL 448
E G+ EV + GL+ E+++ +
Sbjct: 434 EHGREARNEEVAELVGLTVEKLKSV 458
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 75/269 (27%), Positives = 126/269 (46%), Gaps = 59/269 (21%)
Query: 216 LERRSKKRKVSKPQVTNH---------ETYNSRKASVKKKLSEG-------FDRNDPLRL 259
E R KK + +K ++ N + Y R +++ + EG ++ DP +
Sbjct: 326 FEARLKKGRFAKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPTKG 385
Query: 260 F-------LWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWA 309
F W + TR + L + ++I R+ K K L + GRE E A
Sbjct: 386 FKFSTYAHWWIRQAVTRSIADQSRTIRLPIHLYEVISRINKAKRMLVQEHGREARNEEVA 445
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ +GL+ LKS V K + G + ++G L
Sbjct: 446 ELVGLTVEKLKS----------------------VVKSAKAPGSMERPIGKDGDTTL--- 480
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G A+T V+ P+ ++ KQLMRQ + +L LNP+ER ++RLRFG++DG+ K
Sbjct: 481 --------GELVADTDVDSPEDAIVKQLMRQDIEGVLRTLNPREREVLRLRFGLDDGRSK 532
Query: 430 SLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+L E+G IF +++ER+RQ+E++A+ +L+Q
Sbjct: 533 TLEEIGQIFKVTRERIRQIEAKAMRKLRQ 561
>gi|218200736|gb|EEC83163.1| hypothetical protein OsI_28384 [Oryza sativa Indica Group]
Length = 537
Score = 140 bits (352), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 78/204 (38%), Positives = 118/204 (57%), Gaps = 18/204 (8%)
Query: 214 RFLERRSKKRKVSKPQVTNHETY--NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLT 271
R LERRSK+R + + + NS+K KK + ++P +LFL ET + LT
Sbjct: 165 RLLERRSKRRYAPRASIADVSCSADNSKKKEKSKKYGRVLEPDEPFKLFLRDRETTEFLT 224
Query: 272 ADEEFELIAQIQD----------------LIRLEKEKSKLQSQFGREPTLIEWAKAIGLS 315
A EE L ++IQ L+++E+ KL+ Q GREPTL EWA+A+G+S
Sbjct: 225 AKEERHLFSKIQAKPYFYPVIFIFRTAQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMS 284
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
++L+S + +G REK+ +N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P
Sbjct: 285 SKELQSSIRTGRRCREKMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNP 344
Query: 376 QAGCRFANTGVEIPDISVQKQLMR 399
GCRF S++K + +
Sbjct: 345 SKGCRFPTYAYWWIRQSIKKSIFK 368
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/90 (51%), Positives = 67/90 (74%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+ VE PD+SV + +MRQ VR+ L +L+P+E+ I+ RFGI DG+PK+L +G++FGLSK
Sbjct: 447 DPNVEPPDLSVDRMMMRQQVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSK 506
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLL 472
ER+RQL++RAL +LK+S + Y DLL
Sbjct: 507 ERIRQLQNRALEKLKRSASLQGFDVYFDLL 536
>gi|125602683|gb|EAZ42008.1| hypothetical protein OsJ_26557 [Oryza sativa Japonica Group]
Length = 497
Score = 139 bits (351), Expect = 3e-30, Method: Compositional matrix adjust.
Identities = 78/204 (38%), Positives = 118/204 (57%), Gaps = 18/204 (8%)
Query: 214 RFLERRSKKRKVSKPQVTNHETY--NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLT 271
R LERRSK+R + + + NS+K KK + ++P +LFL ET + LT
Sbjct: 125 RLLERRSKRRYAPRASIADVSCSADNSKKKEKSKKYGRVLEPDEPFKLFLRDRETTEFLT 184
Query: 272 ADEEFELIAQIQD----------------LIRLEKEKSKLQSQFGREPTLIEWAKAIGLS 315
A EE L ++IQ L+++E+ KL+ Q GREPTL EWA+A+G+S
Sbjct: 185 AKEERHLFSKIQAKPYFYPVIFIFRTAQILMKIEEAHRKLEVQCGREPTLAEWAEAVGMS 244
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
++L+S + +G REK+ +N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P
Sbjct: 245 SKELQSSIRTGRRCREKMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNP 304
Query: 376 QAGCRFANTGVEIPDISVQKQLMR 399
GCRF S++K + +
Sbjct: 305 SKGCRFPTYAYWWIRQSIKKSIFK 328
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 46/90 (51%), Positives = 67/90 (74%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+ VE PD+SV + +MRQ VR+ L +L+P+E+ I+ RFGI DG+PK+L +G++FGLSK
Sbjct: 407 DPNVEPPDLSVDRMMMRQQVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSK 466
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYADLL 472
ER+RQL++RAL +LK+S + Y DLL
Sbjct: 467 ERIRQLQNRALEKLKRSASLQGFDVYFDLL 496
>gi|255628117|gb|ACU14403.1| unknown [Glycine max]
Length = 196
Score = 136 bits (342), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 85/185 (45%), Positives = 115/185 (62%), Gaps = 5/185 (2%)
Query: 1 MEAGRNLLSSPPSFPSRTRVKHSLSSSASSSSSSSVLMHNEQSAPAVASVPTSSVARHFP 60
ME R + S P FP RT H ++ SSS+SVLM EQ++P VAS ++ A++FP
Sbjct: 1 MEFSRTMFCSSPPFPPRT---HHPWNTLPLSSSTSVLMLREQASPTVASWSSNFSAQNFP 57
Query: 61 TSVLLQEQRDEYRPLLHMFKEDKTSQATSDSRNIETEAFFVEEKNSGDLDQLVQDLEHQF 120
SVLLQEQRDEYRPLLHM KEDKTSQA +R ++T EE N+ + DQ+V D
Sbjct: 58 ASVLLQEQRDEYRPLLHMSKEDKTSQAMFSTRQMDT-VMVHEENNTENADQVVLDFRKHL 116
Query: 121 LHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASL 180
+WP L NL + GE S S T+Q +S+D + + + V+LA+KALS SK+ +S+
Sbjct: 117 HYWPHLQNLLASSQTGE-ISASSTLQQVSSDLDRHTNGVQCNRVSLAKKALSTSKQGSSV 175
Query: 181 AENPK 185
E+ K
Sbjct: 176 VEDLK 180
>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 = 136 bits (342), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 74/200 (37%), Positives = 121/200 (60%), Gaps = 13/200 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R +L + KLL+A EE L +IQD+++LEK +++LQ GREPTL EW++A+
Sbjct: 268 SDPIRSYLRDIKRTKLLSASEEVALSRKIQDILKLEKIRAELQRDIGREPTLSEWSQAVS 327
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L L+ + G S+++KL+N+NLRLVV + K YQGRG++L DL+QEGS+GL++ EKF
Sbjct: 328 LDQTSLELRVKEGRSAKDKLVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSLGLIRGAEKF 387
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIED 425
P+ G +F+ +V + + Q H+ +++ +N + I + E
Sbjct: 388 DPEMGYKFSTYATWWIRQAVTRAIADQSRIIRLPVHIYEVISRINKAKMTISQ-----EL 442
Query: 426 GKPKSLSEVGNIFGLSKERV 445
G+ EV + G+S E++
Sbjct: 443 GRQPRDEEVAAMVGMSVEKL 462
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 52/196 (26%), Positives = 92/196 (46%), Gaps = 38/196 (19%)
Query: 266 TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + L I ++I R+ K K + + GR+P E A +G+S L +
Sbjct: 408 TRAIADQSRIIRLPVHIYEVISRINKAKMTISQELGRQPRDEEVAAMVGMSVEKLLFIVK 467
Query: 325 SGN--SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
S +S ++ I + E S+G M A
Sbjct: 468 SARPPTSMDRPIGKD----------------------GEQSLGEM-------------VA 492
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+ GV P+ + Q+++Q + ++L LNP ER ++RLRFG+ + +L ++G IF +++
Sbjct: 493 DKGVGSPEDDIMTQVLKQDIEDVLRSLNPMEREVLRLRFGLSGAQSMTLKDLGIIFKVTR 552
Query: 443 ERVRQLESRALYRLKQ 458
ER+RQ+E++AL +L+
Sbjct: 553 ERIRQIEAKALRKLRH 568
>gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis]
Length = 592
Score = 135 bits (340), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 90/249 (36%), Positives = 135/249 (54%), Gaps = 20/249 (8%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFL-WGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
T +SRK KK +S +D +RL W + +LLTA EE EL IQDLI+L++ ++
Sbjct: 263 TRSSRKG--KKAISSKGHISDSIRLLRDWS--SSRLLTASEEVELSRGIQDLIKLDRIRA 318
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
K + + G+EPTL +WA+ IG+ + LK L G S +K+IN NLRLV+ VAK YQ RG+
Sbjct: 319 KYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEVGRDSFDKIINCNLRLVISVAKNYQNRGL 378
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNL 405
SL DL+Q GSMGLM+S EKF G +F+ S+ K L Q H+
Sbjct: 379 SLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVES 438
Query: 406 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE--SRALYRLKQSLGGK 463
+T + R + + E + + EV + G+S R+R + SR L + +G
Sbjct: 439 MTRIRTAWRLLYQ-----EHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKD 493
Query: 464 ASYGYADLL 472
+++++
Sbjct: 494 MDEKFSEIV 502
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 59/91 (64%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A+T E + V K+L ++ + +L L +E+ +VRLR+G++DG+ KSL EVG F L
Sbjct: 502 VADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSL 561
Query: 441 SKERVRQLESRALYRLKQSLGGKASYGYADL 471
S+ERVRQ+E +A+ +L+Q+ + Y D+
Sbjct: 562 SRERVRQIEMKAMRKLRQNHRTQHLKHYLDI 592
>gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis]
Length = 495
Score = 134 bits (338), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 90/249 (36%), Positives = 134/249 (53%), Gaps = 20/249 (8%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFL-WGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
T +SRK KK +S +D +RL W +LLTA EE EL IQDLI+L++ ++
Sbjct: 166 TRSSRKG--KKAISSKGHISDSIRLLRDWSSS--RLLTASEEVELSRGIQDLIKLDRIRA 221
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
K + + G+EPTL +WA+ IG+ + LK L G S +K+IN NLRLV+ VAK YQ RG+
Sbjct: 222 KYKEKTGKEPTLAQWAEVIGVDQKTLKMRLEVGRDSFDKIINCNLRLVISVAKNYQNRGL 281
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNL 405
SL DL+Q GSMGLM+S EKF G +F+ S+ K L Q H+
Sbjct: 282 SLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVES 341
Query: 406 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE--SRALYRLKQSLGGK 463
+T + R + + E + + EV + G+S R+R + SR L + +G
Sbjct: 342 MTRIRTAWRLLYQ-----EHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKD 396
Query: 464 ASYGYADLL 472
+++++
Sbjct: 397 MDEKFSEIV 405
Score = 71.6 bits (174), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 59/91 (64%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A+T E + V K+L ++ + +L L +E+ +VRLR+G++DG+ KSL EVG F L
Sbjct: 405 VADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGENFSL 464
Query: 441 SKERVRQLESRALYRLKQSLGGKASYGYADL 471
S+ERVRQ+E +A+ +L+Q+ + Y D+
Sbjct: 465 SRERVRQIEMKAMRKLRQNHRTQHLKHYLDI 495
>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 = 134 bits (336), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 75/203 (36%), Positives = 121/203 (59%), Gaps = 15/203 (7%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ--DLIRLEKEKSKLQSQFGREPTLIEWAKA 311
DP+R +L KLLTA EE L +IQ DL+ LEK KS LQ + GREP++ EW++A
Sbjct: 273 TDPVRAYLRDIGKTKLLTASEEVALSRKIQARDLLVLEKVKSDLQREIGREPSIGEWSRA 332
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+G+ + + G S++K++N+NLRLVV + K YQGRG++L DL+QEGSMGL++ E
Sbjct: 333 VGMEQNAFELRVKEGRYSKDKMVNSNLRLVVSIVKNYQGRGMTLPDLIQEGSMGLIRGAE 392
Query: 372 KFKPQAGCRFANTG------VEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGI 423
KF P G +F+ I+ Q +++R H+ +++ +N ++ +++
Sbjct: 393 KFDPDKGFKFSTYAHWWIRQAVTRAIADQSRIIRLPIHLYEVISRINKAKKMLIQ----- 447
Query: 424 EDGKPKSLSEVGNIFGLSKERVR 446
E G+ EV + G+S E+++
Sbjct: 448 EHGRQPRDEEVAELVGMSVEKLK 470
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 53/174 (30%), Positives = 93/174 (53%), Gaps = 37/174 (21%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN--SSREKLINANLRLVVHV 344
R+ K K L + GR+P E A+ +G+S LK + S SS ++LI
Sbjct: 437 RINKAKKMLIQEHGRQPRDEEVAELVGMSVEKLKFIVKSAKTPSSMDRLIGKE------- 489
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
++ S+G M A+ VE P+ + +Q+++Q V
Sbjct: 490 ---------------KDQSIGEM-------------IADKDVESPEDDLIRQVLKQDVDG 521
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+L LNP+ER ++RLRFG++DG+ ++L E+G +F +++ER+RQ+E++A+ +L+Q
Sbjct: 522 VLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKAMRKLRQ 575
>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 = 132 bits (332), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 68/171 (39%), Positives = 109/171 (63%), Gaps = 1/171 (0%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ + ++ VT+ ++ S +S KK+ S + D +DPLR T +LLTA
Sbjct: 226 RQTERKARRTRAAEKTVTSVLSFKSGSSSRKKRNSVQEVDYSDPLRYLRATTNTSRLLTA 285
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE EL IQDL++LE+ + +L ++G EPT +WA A G++ R L+ L+ G ++K
Sbjct: 286 TEELELSEGIQDLLKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDK 345
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F+
Sbjct: 346 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFST 396
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 32/63 (50%), Positives = 48/63 (76%)
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
KQ M+Q + +L LNP+E+ ++R RFG+EDG+ K+L E+G I G+S+ER+RQ+ES A
Sbjct: 504 KQFMKQDLEKVLDSLNPREKQVIRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFR 563
Query: 455 RLK 457
+LK
Sbjct: 564 KLK 566
>gi|413932356|gb|AFW66907.1| hypothetical protein ZEAMMB73_346249 [Zea mays]
Length = 292
Score = 130 bits (327), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 54/104 (51%), Positives = 80/104 (76%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
+ +QIQ+L++LE + LQ+Q GREPT+ EWA+A+G+SCR+L+S + +G REK+ +N
Sbjct: 1 MFSQIQNLMKLEGAQRNLQAQCGREPTVEEWAQAVGMSCRELQSCVRTGRRCREKMARSN 60
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF
Sbjct: 61 FRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRF 104
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 41/88 (46%), Positives = 68/88 (77%), Gaps = 1/88 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+E P++SV + +MRQ VR+ LT +L+P+E+ I+ RFGI DG+PK+L +G+++GLSKER
Sbjct: 204 IEGPEVSVDRLMMRQQVRSFLTGILSPREKEIIEHRFGIHDGQPKTLHVIGDMYGLSKER 263
Query: 445 VRQLESRALYRLKQSLGGKASYGYADLL 472
+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 264 IRQVQNKALDKLRNSISAQGFHVYFDLL 291
>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 = 129 bits (325), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 77/212 (36%), Positives = 118/212 (55%), Gaps = 6/212 (2%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N RK K+ +++ D NDPLR + KLLT EE EL A IQDL++LE+ +++L
Sbjct: 243 NPRK---KRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELT 299
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR+PT +WA A G+ + L+ +H G ++K+I +N+RLV+ +AK YQG G++L
Sbjct: 300 ERCGRQPTFAQWASAAGVDQKSLRKRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQ 359
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKER 414
DL+QEG GL++ EKF G +F+ +V+K L Q +R ++ R
Sbjct: 360 DLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYR 419
Query: 415 CI-VRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
R + E GK E+ GLS +R+
Sbjct: 420 VKEARKQLYSETGKHPKNEEIAEATGLSMKRL 451
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 41/180 (22%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR---EKL-INAN 337
++ R+++ + +L S+ G+ P E A+A GLS + L + L S R +K+ +N N
Sbjct: 414 VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQN 473
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L+ +A P+A V DI + K+
Sbjct: 474 LKPSEVIAD----------------------------PEA--------VTSEDILI-KEF 496
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 497 MRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 556
>gi|356509511|ref|XP_003523491.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 558
Score = 129 bits (325), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 84/254 (33%), Positives = 137/254 (53%), Gaps = 6/254 (2%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTA 272
R ER++K+ + ++ TN ++ +S +K++S + D +DPLR +LLT
Sbjct: 204 RQTERKAKRVRATEKATTNFTSFKPGSSSRRKRVSMQEVDYSDPLRYLRTTTSASRLLTP 263
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE +L A IQDL++LEK + L +FG +PT +WA G+ + L+ L+ G ++K
Sbjct: 264 TEEIKLSAGIQDLLKLEKIQEDLAERFGSQPTFAQWAAVAGVDQKTLRKRLNYGIFCKDK 323
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDIS 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL+K EKF G +F+ +
Sbjct: 324 MIKSNIRLVISIAKNYQGSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYAHWWIKQA 383
Query: 393 VQKQLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ-- 447
V+K L Q +R ++ R R + E+G+ EV GLS +R+
Sbjct: 384 VRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRLNAVL 443
Query: 448 LESRALYRLKQSLG 461
+ +A L+Q +G
Sbjct: 444 MTPKAPRSLEQKIG 457
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 52/178 (29%), Positives = 88/178 (49%), Gaps = 37/178 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR--EKLINANLR 339
++ R+++ + +L S+ GR+P E A+A GLS + L + L + + R E+ I N
Sbjct: 402 VEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRLNAVLMTPKAPRSLEQKIGIN-- 459
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
+ KP ++ E + + KQ M+
Sbjct: 460 -------------------------------QNLKPSEV--ISDPDAETAEEQLLKQFMK 486
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ + L LNP+ER +VR RFG++DG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 487 KDLEEALDSLNPRERQVVRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLK 544
>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 = 129 bits (324), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 74/205 (36%), Positives = 115/205 (56%), Gaps = 3/205 (1%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
K+ +++ D NDPLR + KLLT EE EL A IQDL++LE+ +++L + GR+P
Sbjct: 247 KRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERSGRQP 306
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
T +WA A G+ + L+ +H G ++K+I +N+RLV+ +AK YQG G++L DL+QEG
Sbjct: 307 TFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGC 366
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLR 420
GL++ EKF G +F+ +V+K L Q +R ++ R R +
Sbjct: 367 RGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQ 426
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERV 445
E GK E+ GLS +R+
Sbjct: 427 LYSETGKHPKNEEIAEATGLSMKRL 451
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 55/180 (30%), Positives = 90/180 (50%), Gaps = 41/180 (22%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR---EKL-INAN 337
++ R+++ + +L S+ G+ P E A+A GLS + L + L S R +K+ +N N
Sbjct: 414 VEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQN 473
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L+ +A P+A V DI + K+
Sbjct: 474 LKPSEVIAD----------------------------PEA--------VTSEDILI-KEF 496
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 497 MRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 556
>gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis
thaliana]
Length = 572
Score = 129 bits (324), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 74/205 (36%), Positives = 115/205 (56%), Gaps = 3/205 (1%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
K+ +++ D NDPLR + KLLT EE EL A IQDL++LE+ +++L + GR+P
Sbjct: 247 KRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTELTERSGRQP 306
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
T +WA A G+ + L+ +H G ++K+I +N+RLV+ +AK YQG G++L DL+QEG
Sbjct: 307 TFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGC 366
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLR 420
GL++ EKF G +F+ +V+K L Q +R ++ R R +
Sbjct: 367 RGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQ 426
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERV 445
E GK E+ GLS +R+
Sbjct: 427 LYSETGKHPKNEEIAEATGLSMKRL 451
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 49/69 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + K+ MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+
Sbjct: 488 PEDILIKEFMRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQI 547
Query: 449 ESRALYRLK 457
ES A +LK
Sbjct: 548 ESSAFRKLK 556
>gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea]
Length = 575
Score = 128 bits (322), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 78/212 (36%), Positives = 120/212 (56%), Gaps = 6/212 (2%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
NSRK K+ + D +DPLR + +LLT+ EE EL A IQDL++LEK +L+
Sbjct: 248 NSRK---KRTSVQEVDYSDPLRYLRGATNSSRLLTSSEETELSAGIQDLLKLEKLHDELK 304
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+FG+ P+ ++WA A G+ R L+ L+ G ++K+I +N+RLV+ +AK YQG G++L
Sbjct: 305 VRFGKSPSFVQWAAAAGIDQRTLRRRLNHGTFCKDKMIKSNVRLVISIAKNYQGSGMNLQ 364
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKER 414
DL+QEG GL++ EKF G +F+ +V+K L Q +R ++ R
Sbjct: 365 DLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYR 424
Query: 415 CI-VRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
R + E+GK + EV GLS +R+
Sbjct: 425 VKEARKQLLSENGKQPNNEEVAEATGLSMKRL 456
Score = 71.6 bits (174), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 89/178 (50%), Gaps = 37/178 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR--EKLINANLR 339
++ R+++ + +L S+ G++P E A+A GLS + L + L + + R ++ I N+
Sbjct: 419 VEATYRVKEARKQLLSENGKQPNNEEVAEATGLSMKRLTAVLMTPKAPRSLDQKIGFNMN 478
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
L KP A+ E + + KQ MR
Sbjct: 479 L---------------------------------KPSE--VIADPEAETAEDLLTKQFMR 503
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
Q + +L L+ +E+ ++R RFG+EDG+ K+L E+G + G+S+ER+RQ+ES A +L+
Sbjct: 504 QDLEKVLDTLSSREKQVIRWRFGLEDGRMKTLQEIGELMGVSRERIRQIESSAFRKLQ 561
>gi|255565968|ref|XP_002523972.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis]
gi|223536699|gb|EEF38340.1| RNA polymerase sigma factor rpoD1, putative [Ricinus communis]
Length = 569
Score = 126 bits (316), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 84/254 (33%), Positives = 136/254 (53%), Gaps = 6/254 (2%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ + + ++ + S KK+ S + D +DPLR T +LLTA
Sbjct: 215 RQTERKARRARAVEKAASSVVSVKPGSTSKKKRGSLQEVDYSDPLRYLRGTTSTSRLLTA 274
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE EL A IQDL++LE+ + +L ++G +PT +WA A G+ R L+ ++ G ++K
Sbjct: 275 SEELELSAAIQDLLKLERLQEELAERYGGQPTFAQWAAAAGVDQRTLRKRINHGTICKDK 334
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDIS 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F+ +
Sbjct: 335 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 394
Query: 393 VQKQLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ-- 447
V+K L Q +R ++ R R + E+G+ EV GLS +R+
Sbjct: 395 VRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPDDEEVAEAAGLSMKRLSAVL 454
Query: 448 LESRALYRLKQSLG 461
L +A L Q +G
Sbjct: 455 LTPKAPRSLDQKIG 468
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 55/178 (30%), Positives = 88/178 (49%), Gaps = 37/178 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR--EKLINANLR 339
++ R+++ + +L S+ GR P E A+A GLS + L + L + + R ++ I N+
Sbjct: 413 VEATYRVKEARKQLYSENGRHPDDEEVAEAAGLSMKRLSAVLLTPKAPRSLDQKIGMNMD 472
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
L KP A+ E + + KQ M+
Sbjct: 473 L---------------------------------KPSEV--IADPEAETAEELLMKQFMK 497
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
Q + +L LNP+E +VR RFG+EDG+ K+L E+G I G+S+ER+RQ+ES A +LK
Sbjct: 498 QDLEKVLNTLNPRETQVVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQIESSAFRKLK 555
>gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana]
Length = 574
Score = 124 bits (311), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 74/207 (35%), Positives = 115/207 (55%), Gaps = 5/207 (2%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKL--LTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
K+ +++ D NDPLR + KL LT EE EL A IQDL++LE+ +++L + GR
Sbjct: 247 KRLVAQEVDHNDPLRYLRMTTSSSKLKLLTVREEHELSAGIQDLLKLERLQTELTERSGR 306
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
+PT +WA A G+ + L+ +H G ++K+I +N+RLV+ +AK YQG G++L DL+QE
Sbjct: 307 QPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQE 366
Query: 362 GSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VR 418
G GL++ EKF G +F+ +V+K L Q +R ++ R R
Sbjct: 367 GCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEAR 426
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERV 445
+ E GK E+ GLS +R+
Sbjct: 427 KQLYSETGKHPKNEEIAEATGLSMKRL 453
Score = 68.9 bits (167), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/63 (47%), Positives = 46/63 (73%)
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
K+ MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A
Sbjct: 496 KEFMRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFR 555
Query: 455 RLK 457
+LK
Sbjct: 556 KLK 558
>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 = 121 bits (304), Expect = 8e-25, Method: Compositional matrix adjust.
Identities = 57/129 (44%), Positives = 85/129 (65%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + +LQ Q REP EWA+A+ L
Sbjct: 82 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQDQLEREPQFKEWAEAVEL 141
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 142 PLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 201
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 202 HEKGYKFST 210
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 303 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 362
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 363 TRERIRQIEAKALRKLRH 380
>gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera]
Length = 575
Score = 121 bits (303), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 79/227 (34%), Positives = 124/227 (54%), Gaps = 6/227 (2%)
Query: 241 ASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
S +K++S + D +DPLR T +LLTA EE EL IQDL++LEK + L+ +F
Sbjct: 248 TSRRKRVSLQEVDYSDPLRYLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERF 307
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
G +PT +WA A G+ + L+ + G ++K+I +N+RLV+ +AK YQG G+++ DL+
Sbjct: 308 GVKPTFAQWAAAAGVDQKTLRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLV 367
Query: 360 QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI- 416
QEG GL++ EKF G +F+ +V+K L Q +R ++ R
Sbjct: 368 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKE 427
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ--LESRALYRLKQSLG 461
R + E+G+ + EV GLS +R+ L +A L Q +G
Sbjct: 428 ARKQLYSENGRHPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIG 474
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 41/180 (22%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR---EKL-INAN 337
++ R+++ + +L S+ GR P E A+A GLS + L + L + + R +K+ IN N
Sbjct: 419 VEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQN 478
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L KP A+ E + + KQ
Sbjct: 479 L-----------------------------------KPSEV--IADPDAETAEELLIKQF 501
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MR+ + +L LNP+E+ ++R R+G+EDG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 502 MREDLEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLK 561
>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 = 120 bits (302), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 57/129 (44%), Positives = 85/129 (65%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + +LQ Q REP EWA+A+ L
Sbjct: 83 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQQQLEREPQYSEWAEAVQL 142
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 143 PLPQFRHRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 202
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 203 HEKGYKFST 211
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 304 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 363
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLR 380
>gi|225436223|ref|XP_002273602.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 578
Score = 120 bits (302), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 79/227 (34%), Positives = 124/227 (54%), Gaps = 6/227 (2%)
Query: 241 ASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
S +K++S + D +DPLR T +LLTA EE EL IQDL++LEK + L+ +F
Sbjct: 251 TSRRKRVSLQEVDYSDPLRYLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLEERF 310
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
G +PT +WA A G+ + L+ + G ++K+I +N+RLV+ +AK YQG G+++ DL+
Sbjct: 311 GVKPTFAQWAAAAGVDQKTLRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQDLV 370
Query: 360 QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI- 416
QEG GL++ EKF G +F+ +V+K L Q +R ++ R
Sbjct: 371 QEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKE 430
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ--LESRALYRLKQSLG 461
R + E+G+ + EV GLS +R+ L +A L Q +G
Sbjct: 431 ARKQLYSENGRHPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIG 477
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 90/180 (50%), Gaps = 41/180 (22%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR---EKL-INAN 337
++ R+++ + +L S+ GR P E A+A GLS + L + L + + R +K+ IN N
Sbjct: 422 VEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQN 481
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L KP A+ E + + KQ
Sbjct: 482 L-----------------------------------KPSEV--IADPDAETAEELLIKQF 504
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MR+ + +L LNP+E+ ++R R+G+EDG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 505 MREDLEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMGVSRERIRQIESCAFRKLK 564
>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 = 120 bits (301), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 63/160 (39%), Positives = 101/160 (63%), Gaps = 5/160 (3%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
+ S VT + NS++ S KK +E D +RL+L +LL ADEE EL +I
Sbjct: 57 ETSTKAVTATKEENSKEDSKKKSYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIA 111
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
DL+ LE+++++L++ G EPT EWA+ + + + + L G ++EK++ +NLRLVV
Sbjct: 112 DLLELERKRTELEATIGCEPTDEEWAEEVDMPLQKFRRRLMLGRRAKEKMVQSNLRLVVS 171
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 172 IAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 211
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G+EDG+ K+L E+G IF +
Sbjct: 304 FIEADGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNV 363
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLR 380
>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 = 120 bits (300), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 68/178 (38%), Positives = 103/178 (57%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
E+ F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 EIDDFLEPQSDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L Q REP EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRDRLYEQLEREPQFKEWAEAVQLPLPTFRYRLHV 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba]
Length = 575
Score = 120 bits (300), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 71/205 (34%), Positives = 110/205 (53%), Gaps = 3/205 (1%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
K+ S+ D NDPLR + KLLTA EE +L IQDL++LE+ +++L + G +P
Sbjct: 247 KRVASQEIDHNDPLRYLRMTTSSSKLLTAREEQQLSEGIQDLLKLERLQAELTERCGHQP 306
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
T +WA A G+ + L+ + G ++++I +N+RLV+ +AK YQG G+ DL+QEG
Sbjct: 307 TFSQWASAAGVDKKTLRKRITHGTQCKDRMIKSNIRLVISIAKNYQGAGMDFQDLVQEGC 366
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLR 420
GL++ EKF G +F+ +V+K L Q +R ++ R R +
Sbjct: 367 RGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQ 426
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERV 445
E GK EV GLS +R+
Sbjct: 427 LYSETGKQPKNEEVAEATGLSMKRL 451
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 52/178 (29%), Positives = 87/178 (48%), Gaps = 37/178 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR--EKLINANLR 339
++ R+++ + +L S+ G++P E A+A GLS + L + L S R ++ I NL
Sbjct: 414 VEATYRVKEARKQLYSETGKQPKNEEVAEATGLSMKRLMAVLLSPKPPRSLDQKIGINLN 473
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
L KP A+ E + + KQ MR
Sbjct: 474 L---------------------------------KPSEV--IADPEAETSEDILMKQFMR 498
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
Q + +L L+ +E+ ++R RFG+EDG+ K+L E+G G+S+ERVRQ+++ A +LK
Sbjct: 499 QDLDKVLDSLSTREKQVIRWRFGMEDGRMKTLQEIGETMGVSRERVRQIDTSAFRKLK 556
>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 = 119 bits (298), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 61/145 (42%), Positives = 91/145 (62%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R S KK +E D +RL+L +LL ADEE EL +I DL+ LE+ + +LQ Q
Sbjct: 70 RTQSKKKHYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDRLQEQ 124
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA+A+ + + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 125 LEREPEYREWAEAVQIPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 184
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 185 IQEGSLGLIRAAEKFDHEKGYKFST 209
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLR 378
>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 = 119 bits (298), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 68/178 (38%), Positives = 104/178 (58%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
E+ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 EIDEFLEPQSDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + KL Q R+P EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVREKLSEQLDRDPKDSEWAEAVQLPLPAFRYRLHV 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 119 bits (298), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + +L +
Sbjct: 66 RRAQAKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREQLLEE 121
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
+ REP EWA A+ ++ + LH G ++EK++ +NLRLVV +AK+Y RG+S DL
Sbjct: 122 YNREPKDSEWANAVDMALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDL 181
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 182 IQEGSLGLIRAAEKFDHEKGYKFST 206
Score = 78.2 bits (191), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 299 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 358
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 359 TRERIRQIEAKALRKLRH 376
>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 = 119 bits (297), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 61/145 (42%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
RKA KKK D +RL+L +LL ADEE EL +I DL+ LE+ ++ L Q
Sbjct: 59 RKAQAKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRADLAEQ 114
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REPT EWA+ + ++ + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 115 LEREPTDAEWAQKVDMALPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 174
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 175 IQEGSLGLIRAAEKFDHEKGYKFST 199
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 58/77 (75%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 292 FIESDGETPEDQVSKNLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 351
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 352 TRERIRQIEAKALRKLR 368
>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 = 118 bits (296), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + +L +
Sbjct: 66 RRAQAKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVREQLLEE 121
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
+ REP EWA A+ ++ + LH G ++EK++ +NLRLVV +AK+Y RG+S DL
Sbjct: 122 YNREPKDSEWANAVEMALPAFRHRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDL 181
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 182 IQEGSLGLIRAAEKFDHEKGYKFST 206
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 299 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 358
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 359 TRERIRQIEAKALRKLRH 376
>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 = 117 bits (294), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 61/156 (39%), Positives = 91/156 (58%), Gaps = 5/156 (3%)
Query: 228 PQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR 287
P+ T + R KK +E D +RL+L +LL ADEE EL +I DL+
Sbjct: 55 PKATKARSTRRRAQPKKKHYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLE 109
Query: 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQ 347
LE+ + L REP EWA A+ +S + LH G +++K++ +NLRLVV +AK+
Sbjct: 110 LERIREHLCDHLHREPYDAEWADAVKMSVGQFRHRLHCGRRAKDKMVQSNLRLVVSIAKK 169
Query: 348 YQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 170 YMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 205
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 298 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 357
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 358 TRERIRQIEAKALRKLRH 375
>gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa]
gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa]
Length = 564
Score = 117 bits (294), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 75/215 (34%), Positives = 120/215 (55%), Gaps = 5/215 (2%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
D++DPLR F + +LL+A EE EL IQDL++LE+ + +L+ +FG +PT +WA A
Sbjct: 249 DQSDPLRFFRGASTSSRLLSATEEVELSEGIQDLLKLERIEEELKERFGGKPTFAQWAAA 308
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+ L+ L+ ++K+I +N+RLV+ +AK YQG G++L DL+QEG GL++ VE
Sbjct: 309 ARVDQITLRKRLNYAILCKDKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGVE 368
Query: 372 KFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDGKP 428
KF G +F+ +V++ L Q +R +++ R R +F E+G+
Sbjct: 369 KFDASKGFKFSTYAHWWIRQAVRRSLSDQSRTIRLPFHMVDATYRVKEARKQFYSENGRH 428
Query: 429 KSLSEVGNIFGLSKERVRQ--LESRALYRLKQSLG 461
EV GLS +R+ L +A L Q +G
Sbjct: 429 PDDKEVAEATGLSMKRLSAVLLTPKAPRSLDQKMG 463
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 51/76 (67%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ E + + K+ M++ + +L L+P+E ++R RFG+EDG+ K+L E+G + G+S
Sbjct: 475 ADPEAETAEDLLMKEFMKKDLERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVS 534
Query: 442 KERVRQLESRALYRLK 457
+ER+RQ+E A +LK
Sbjct: 535 RERIRQIELSAFRKLK 550
>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 = 117 bits (293), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 56/129 (43%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + L Q REP EWA+A+ L
Sbjct: 80 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEAVKL 139
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 140 PLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 199
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 200 HEKGYKFST 208
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 56/77 (72%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 117 bits (293), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 56/129 (43%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + L Q REP EWA+A+ L
Sbjct: 80 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEAVKL 139
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 140 PLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 199
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 200 HEKGYKFST 208
Score = 73.9 bits (180), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 56/77 (72%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L P+ER ++RLR+G+++G+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKSLLREDLERVLDSLGPRERDVLRLRYGLDNGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 117 bits (293), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I +L+ +E+ + +L Q
Sbjct: 68 RRAQTKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIAELLEMERVRERLLEQ 123
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA+A+ LS + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 124 LDREPQDSEWAEAVQLSLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 183
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 184 IQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKSLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 117 bits (292), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 67/178 (37%), Positives = 104/178 (58%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
E+ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 45 EMDEFLEPQSDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 91
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L Q R+P EWA+A+ L + LH
Sbjct: 92 RIRLLRADEEIELARKIADLLELERVRERLSEQLDRDPRDSEWAEAVQLPLPAFRYRLHV 151
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 152 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 209
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLR 378
>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 = 116 bits (291), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 55/129 (42%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + LQ Q R P EWA A+ +
Sbjct: 72 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRESLQQQLDRTPQDAEWANAVNM 131
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 132 TLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 191
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 192 HEKGYKFST 200
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 293 FIESDGETPEDQVAKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 352
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 353 TRERIRQIEAKALRKLRH 370
>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 = 116 bits (291), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 90/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + KL Q
Sbjct: 67 RRAQAKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSQQ 122
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
R+P EWA+A+ + + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 123 LDRDPKDSEWAEAVQVPLPQFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 182
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 183 IQEGSLGLIRAAEKFDHEKGYKFST 207
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 300 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 359
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 360 TRERIRQIEAKALRKLR 376
>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 = 116 bits (290), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 90/145 (62%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R S KK +E D +RL+L +LL ADEE EL +I DL+ LE+ + +L Q
Sbjct: 68 RTQSKKKHYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEQ 122
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
R+P EWA+A+ L + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 123 LDRDPRDSEWAEAVQLPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 182
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 183 IQEGSLGLIRAAEKFDHEKGYKFST 207
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 300 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 359
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 360 TRERIRQIEAKALRKLR 376
>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 = 115 bits (289), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 60/145 (41%), Positives = 90/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + KL +
Sbjct: 70 RRAQTKKKQYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLSDR 125
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA+A+ + + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 126 LDREPQDSEWAEAVKQNLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 185
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 186 IQEGSLGLIRAAEKFDHEKGYKFST 210
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 303 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 362
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 363 TRERIRQIEAKALRKLR 379
>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 = 115 bits (289), Expect = 4e-23, Method: Compositional matrix adjust.
Identities = 60/147 (40%), Positives = 88/147 (59%), Gaps = 4/147 (2%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N R+ KKK D +RL+L +LL ADEE EL +I DL+ LE+ + +L
Sbjct: 49 NRRRTQSKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLS 104
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q REP EWA + + + LH G ++EK++ +NLRLVV +AK+Y RG+S
Sbjct: 105 EQLEREPGDREWATEVDMELPAFRYRLHVGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQ 164
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEGS+GL+++ EKF + G +F+
Sbjct: 165 DLIQEGSLGLIRAAEKFDHEKGYKFST 191
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 284 FIEADGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 343
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>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 = 115 bits (288), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 66/178 (37%), Positives = 104/178 (58%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
++ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 DIDEFLEPQSDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L Q R+P EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERIRERLSEQLERDPHDSEWAEAVQLPLPAFRYRLHL 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 115 bits (288), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 72/223 (32%), Positives = 119/223 (53%), Gaps = 28/223 (12%)
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ---------DLIRLEK 290
K+ +K +LS DP+ +L + KLLTA EE L +IQ ++LEK
Sbjct: 249 KSLIKHRLS------DPICSYLRDVKNSKLLTAFEEVALSRKIQVTTLFRFRQYTLKLEK 302
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+++LQ GREPT EW+ A+G++ + + G +++KL+N+NLRLVV + K YQG
Sbjct: 303 VRAELQRDMGREPTRSEWSLAVGMNQTLFELRIKEGQCAKDKLVNSNLRLVVSIVKNYQG 362
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HV 402
RG++L DL+Q GS+GL++ EKF P+ G +F+ +V + + Q H+
Sbjct: 363 RGMTLPDLIQRGSLGLIRGAEKFDPEMGFKFSTYATWWIRQAVTRSITDQSRIIRLPVHI 422
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+++ +N R+ + G+ EV G+S E++
Sbjct: 423 YEVISRINKS-----RMMIAEDQGRQARDEEVATAVGISVEKL 460
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 51/77 (66%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ G D + ++++Q + +L L+P ER ++RLRFG++D + +L ++G F ++
Sbjct: 490 ADKGFNSADDFLTNEVLKQDIDGVLQTLSPTEREVLRLRFGLDDAQSMTLKDIGIFFKVT 549
Query: 442 KERVRQLESRALYRLKQ 458
+ER+RQ+E RAL +L+
Sbjct: 550 RERIRQIEVRALRKLRH 566
>gi|357510737|ref|XP_003625657.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
gi|355500672|gb|AES81875.1| RNA polymerase sigma factor rpoD [Medicago truncatula]
Length = 365
Score = 115 bits (287), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 54/92 (58%), Positives = 71/92 (77%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A++ +EIP++ V KQLMR HVRNLL +L PKER ++RLRFGIEDG KSL+E+G + G+
Sbjct: 274 ADSSIEIPNVCVAKQLMRSHVRNLLGILPPKERKVLRLRFGIEDGYEKSLTEIGKVLGVC 333
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLLI 473
KERVRQLES+AL +LKQ L + Y DL++
Sbjct: 334 KERVRQLESQALNKLKQCLVSQQLDAYVDLIV 365
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 40/64 (62%), Positives = 50/64 (78%), Gaps = 1/64 (1%)
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+++ GN S++KLI+ANLRLVVH+AK YQG L+ EGSMGLM+SVEKFKPQAGC
Sbjct: 117 QNDFIGGNRSKDKLIHANLRLVVHIAKYYQGAWSQPXGLI-EGSMGLMRSVEKFKPQAGC 175
Query: 380 RFAN 383
RF+
Sbjct: 176 RFST 179
>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 = 115 bits (287), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 55/129 (42%), Positives = 84/129 (65%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ +L Q R+P EWA+A+ L
Sbjct: 79 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVGDRLVQQLERQPQESEWAEAVQL 138
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 139 PLQKFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 198
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 199 HEKGYKFST 207
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 300 FIESDGETPEDQVSKSLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 359
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 360 TRERIRQIEAKALRKLR 376
>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 = 114 bits (286), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 104/178 (58%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
++ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 DIDEFLEPQTDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L + R+P EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHI 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 114 bits (286), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 91/155 (58%), Gaps = 5/155 (3%)
Query: 229 QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL 288
+ T T R S KK +E D +RL+L +LL ADEE EL +I DL+ L
Sbjct: 40 KTTKARTARRRGQSKKKHYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLEL 94
Query: 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQY 348
E+ L + REP L EWA + + + LH+G +++K++ +NLRLVV +AK+Y
Sbjct: 95 ERIYDDLFDRLEREPQLQEWALEVDMPLNRFRHRLHAGRRAKDKMVQSNLRLVVSIAKKY 154
Query: 349 QGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 155 MNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 189
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G IF +
Sbjct: 282 FIESDGETPEDQVSKSLLREDLETVLDTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 341
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 342 TRERIRQIEAKALRKLRH 359
>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 = 114 bits (286), Expect = 8e-23, Method: Compositional matrix adjust.
Identities = 59/145 (40%), Positives = 90/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + +L +
Sbjct: 69 RRAQAKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLCEE 124
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
R+P EWA A+G+ + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 125 LERDPKDNEWANAVGMPLPAFRHRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 184
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 185 IQEGSLGLIRAAEKFDHEKGYKFST 209
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLRH 379
>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 = 114 bits (286), Expect = 9e-23, Method: Compositional matrix adjust.
Identities = 60/146 (41%), Positives = 89/146 (60%), Gaps = 5/146 (3%)
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
+R A KK +E D +RL+L +LL ADEE EL +I DL+ LE+ + +L
Sbjct: 64 TRTAGKKKHYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREELIY 118
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
REP + EWA A+ + K L G ++EK++ +NLRLVV +AK+Y RG+S D
Sbjct: 119 HLDREPQVSEWANAVDMELPKFKRRLILGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQD 178
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFAN 383
L+QEGS+GL+++ EKF + G +F+
Sbjct: 179 LIQEGSLGLIRAAEKFDHEKGYKFST 204
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 58/77 (75%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 297 FIESDGETPEDEVSKNLLREDLESVLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 356
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 357 TRERIRQIEAKALRKLR 373
>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 = 114 bits (285), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 58/145 (40%), Positives = 89/145 (61%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + +L Q
Sbjct: 51 RRAQAKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLSDQ 106
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA + + + + L+ G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 107 LEREPQDSEWATEVNMPLQAFRHRLYVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 166
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 167 IQEGSLGLIRAAEKFDHEKGYKFST 191
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 284 FIEADGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 343
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>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 = 114 bits (285), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 85/129 (65%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL +I DL+ LE+ + +L+ R PT EWA+A G+
Sbjct: 69 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLEEHESRVPTDKEWAEAAGM 128
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+D + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 129 PLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 188
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 189 HEKGYKFST 197
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 290 FIEADGETPEDQVSKSLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 349
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 350 TRERIRQIEAKALRKLR 366
>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 = 114 bits (284), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 86/129 (66%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL +I DL+ LE+ + K+ GR PT +EW++AI +
Sbjct: 69 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIREKMTEHMGRFPTDLEWSQAINM 128
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L+ G +++K++++NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 129 EWHAFQRRLYLGRKAKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 188
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 189 HEKGYKFST 197
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 290 FIEADGENPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 349
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 350 TRERIRQIEAKALRKLRH 367
>gi|1588486|prf||2208419B RNA polymerase sigma factor
Length = 391
Score = 113 bits (283), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 92/153 (60%), Gaps = 4/153 (2%)
Query: 235 TYNSRKASVKKKLSEGFDRN----DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK 290
T SRKA ++ + D +R++L +LL A+EE EL +I DL+ LE+
Sbjct: 57 TKKSRKAKTSRRKETATKKKPYTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELER 116
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+ +L R PT EWA+A G+ +D + L G +++K++ +NLRLVV +AK+Y
Sbjct: 117 MREQLTEHESRVPTDKEWAEAAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN 176
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 177 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 209
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 56/78 (71%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+ +ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIEADGETPEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLRH 379
>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 = 113 bits (283), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 92/153 (60%), Gaps = 4/153 (2%)
Query: 235 TYNSRKASVKKKLSEGFDRN----DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK 290
T SRKA ++ + D +R++L +LL A+EE EL +I DL+ LE+
Sbjct: 41 TKKSRKAKTSRRKETATKKKPYTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELER 100
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+ +L R PT EWA+A G+ +D + L G +++K++ +NLRLVV +AK+Y
Sbjct: 101 MREQLTEHESRVPTDKEWAEAAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN 160
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 161 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 193
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 56/77 (72%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+ +ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 286 FIEADGETPEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNV 345
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 346 TRERIRQIEAKALRKLR 362
>gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 317
Score = 113 bits (282), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 68/200 (34%), Positives = 112/200 (56%), Gaps = 13/200 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q ++ LEK K++L + +EP+L EWA+A L
Sbjct: 9 DPVRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANL 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S R LK +L G +++K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SQRQLKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G RF+ ++ + + Q H+ L + +R + + +G
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEQSRTIRLPIHITEKLNKIKKAQRQLAQ-----ANG 183
Query: 427 KPKSLSEVGNIFGLSKERVR 446
+ S+ E+ + GL+ ++VR
Sbjct: 184 RSASIPELADELGLTTKQVR 203
Score = 52.0 bits (123), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 46/72 (63%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+PD +++ + +L L +++ ++ LRFG+ DG P +L+++G +S+ERVR
Sbjct: 235 ELPDDYATHAALKRDLARMLNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVR 294
Query: 447 QLESRALYRLKQ 458
Q+E +L +L++
Sbjct: 295 QIEHGSLAKLRK 306
>gi|428772058|ref|YP_007163846.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
stanieri PCC 7202]
gi|428686337|gb|AFZ46197.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
stanieri PCC 7202]
Length = 318
Score = 113 bits (282), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 67/206 (32%), Positives = 112/206 (54%), Gaps = 13/206 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L LLT +EE IQ+L+ LEK+K L + EPTL EWAKA +
Sbjct: 9 DTIRVYLKEIGRIPLLTQEEEIIYAKHIQELVALEKKKETLAKKLEHEPTLGEWAKAAKI 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++L+ ++ G ++ +++ ANLRLVV +AK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SEKNLQIKITQGEKAKRRMVEANLRLVVSIAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G RF+ ++ + + + H+ L + +R + E G
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQR-----KLSEEKG 183
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRA 452
+P +++E+ LS E+VR+ +A
Sbjct: 184 RPATIAELAEALELSTEQVREYLGKA 209
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 46/57 (80%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ +++ L +++ ++RLR+G+EDGKP +LS++G+I +S+ERVRQ+E AL +L++
Sbjct: 251 LKKMMSELTQQQQDVIRLRYGLEDGKPLTLSKIGDILSISRERVRQIEREALTKLRK 307
>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 = 113 bits (282), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 65/178 (36%), Positives = 102/178 (57%), Gaps = 13/178 (7%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
E+ +F +P+ E +K K +K + R S KK +E D +RL+L
Sbjct: 44 EIDEFLEPQSDEDDAKSGKAAKSR--------RRTQSKKKHYTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + +L + R+P EWA + L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRERLSERLERDPKDSEWAAEVQLPLPAFRYRLHV 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 208
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 301 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 360
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 361 TRERIRQIEAKALRKLR 377
>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 = 112 bits (281), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 55/129 (42%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + +L Q REP EWAK + +
Sbjct: 70 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRLYDQLEREPKEGEWAKEVEM 129
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 130 ELPAFRQRLFLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 189
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 190 HEKGYKFST 198
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 291 FIEADGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 350
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 351 TRERIRQIEAKALRKLR 367
>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 = 112 bits (281), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I +L+++E+ + +L +
Sbjct: 64 RRAQTKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIAELLQMERVREQLCDR 119
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
R+P EWA+A+ L + LH G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 120 LDRDPHDSEWAEAVELPINSFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 179
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 180 IQEGSLGLIRAAEKFDHEKGYKFST 204
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 297 FIESDGETPEDQVSKNLLREDLEKVLDGLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 356
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 357 TRERIRQIEAKALRKLR 373
>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 = 112 bits (281), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 91/145 (62%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R A KK +E D +R++L +LL A+EE EL +I DL+ LE+ + KL+
Sbjct: 56 RDAGKKKPYTE-----DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRN 110
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
GR P+ EWA+ +G+ + L+ G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 111 LGRYPSDKEWAQQVGMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 170
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 171 IQEGSLGLIRAAEKFDHEKGYKFST 195
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 288 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 347
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 348 TRERIRQIEAKALRKLR 364
>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 = 112 bits (281), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + +L + REP EWA + +
Sbjct: 68 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREQLYDKLDREPQDQEWAGEVDM 127
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 128 PLQSFRHRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 187
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 188 HEKGYKFST 196
Score = 75.1 bits (183), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G +F +
Sbjct: 289 FIESDGETPEDQVSKNLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNV 348
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 349 TRERIRQIEAKALRKLR 365
>gi|218438948|ref|YP_002377277.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218171676|gb|ACK70409.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 376
Score = 112 bits (280), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 91/145 (62%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R A KK +E D +R++L +LL A+EE EL +I DL+ LE+ + KL+
Sbjct: 55 RDAGKKKPYTE-----DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERLREKLRRS 109
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
GR P+ EWA+ +G+ + L+ G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 110 LGRYPSDKEWAEQVGMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 169
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 170 IQEGSLGLIRAAEKFDHEKGYKFST 194
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 287 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 346
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 347 TRERIRQIEAKALRKLR 363
>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 = 112 bits (280), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 58/145 (40%), Positives = 91/145 (62%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I +L++LE+ +L++Q
Sbjct: 61 RRAQTKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIAELLQLERVYEQLKAQ 116
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA A+ + + L+ G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 117 LDREPKDSEWALAVEMPLPQFRHRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 176
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 177 IQEGSLGLIRAAEKFDHEKGYKFST 201
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 294 FIEADGETPEDEVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 353
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 354 TRERIRQIEAKALRKLR 370
>gi|170078438|ref|YP_001735076.1| sigma factor [Synechococcus sp. PCC 7002]
gi|169886107|gb|ACA99820.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 318
Score = 112 bits (280), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 67/200 (33%), Positives = 113/200 (56%), Gaps = 13/200 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q ++ LEK K++L + +EP+L EWA+A L
Sbjct: 9 DPVRTYLKEIGRVPLLTHEEEVLYSRRVQKMVNLEKLKAELAEKQDQEPSLKEWAQAANL 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S R+LK +L G +++K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SQRELKKQLLLGKQAKQKMVEANLRLVVSVAKKYIKRNMDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G RF+ ++ + + + H+ L + +R + + +G
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQ-----ANG 183
Query: 427 KPKSLSEVGNIFGLSKERVR 446
+ S+ E+ + GL+ ++VR
Sbjct: 184 RSASIPELADELGLTTKQVR 203
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 45/78 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD +++ + +L L +++ ++ LRFG+ DG P +L+++G +S+ERVRQ+
Sbjct: 238 PDDYATHAALKRDLARMLNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLSISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L++ Y
Sbjct: 298 EREALAKLRKRKAEMGEY 315
>gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri]
gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri]
Length = 525
Score = 112 bits (279), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 72/221 (32%), Positives = 122/221 (55%), Gaps = 17/221 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE--WAKAI 312
D +R +L + LL A +E EL +IQDL+ LE + L + G L E WA A
Sbjct: 201 DSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLIEETGPGVELSESQWAAAA 260
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GL+ L+ LH G +++ ++I ANLRLVV +AK+Y +S DL+QEG +GL++ EK
Sbjct: 261 GLNVSALRQRLHDGKAAKNEMIQANLRLVVSIAKKYANTNMSFQDLIQEGCVGLIRGAEK 320
Query: 373 FKPQAGCRFANTG------VEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIE 424
F Q G +F+ IS Q + +R H+ +++ ++ E+ +F +
Sbjct: 321 FDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRISKMEQ-----KFALY 375
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLE--SRALYRLKQSLGGK 463
+G+P +L E+ + +S E++ Q++ ++A L Q++GG+
Sbjct: 376 NGRPPTLEEIASEMEMSVEKITQIKKAAQAPVSLAQTMGGE 416
Score = 81.6 bits (200), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 74/129 (57%), Gaps = 18/129 (13%)
Query: 348 YQGRGISLHDLLQEGSMGLMKSVE-KFKPQAGCRFA------NTGVEIPDISVQ------ 394
Y GR +L ++ E M + K + K QA A N G I D +
Sbjct: 375 YNGRPPTLEEIASEMEMSVEKITQIKKAAQAPVSLAQTMGGENKGRTIEDTLIDANAEGP 434
Query: 395 -----KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E
Sbjct: 435 EKVSGKSLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIE 494
Query: 450 SRALYRLKQ 458
++AL +LKQ
Sbjct: 495 AKALRKLKQ 503
>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 = 112 bits (279), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 59/130 (45%), Positives = 84/130 (64%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE Q+Q LI LEK K L+SQ GREP+ +W++A
Sbjct: 8 TDPVRSYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRSQLGREPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>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 = 111 bits (277), Expect = 8e-22, Method: Compositional matrix adjust.
Identities = 87/268 (32%), Positives = 138/268 (51%), Gaps = 12/268 (4%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL-SEGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ + S TN ++ S + KK++ ++ D +DPLR T +LLT
Sbjct: 218 RQTERKARRVRASGKAATNIVSFRSGSTTRKKRVRTQEVDYSDPLRYLRTTTRTTRLLTT 277
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE + IQDLI+LEK + L + G +PT +WA G+ + L+ L+ G +EK
Sbjct: 278 SEEIKFSEGIQDLIKLEKLQEDLAEKCGGQPTFAQWATMAGVDQKTLRKRLNYGVFCKEK 337
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG------V 386
+I +N+RLV+ VAK YQG G+SL DL+QEG GL++ EK+ G +F+
Sbjct: 338 MIKSNIRLVISVAKNYQGSGMSLQDLVQEGCRGLVRGAEKYDASKGFKFSTYAHWWIKQA 397
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+SVQ + +R + KE R + E+G+ EV GLS +R+
Sbjct: 398 VRKSLSVQSRTIRLPFHMVGATYKVKE---ARKQLYSENGRQPDDEEVAEATGLSMKRLS 454
Query: 447 Q--LESRALYRLKQSLGGKASYGYADLL 472
L +A L+Q +G S +++L
Sbjct: 455 AVLLTPKAPRSLEQKVGINQSLKLSEVL 482
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 48/173 (27%), Positives = 90/173 (52%), Gaps = 37/173 (21%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR--EKLINANLRLVVHV 344
++++ + +L S+ GR+P E A+A GLS + L + L + + R E+ + N
Sbjct: 421 KVKEARKQLYSENGRQPDDEEVAEATGLSMKRLSAVLLTPKAPRSLEQKVGIN------- 473
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ + L ++L A+ E + + KQ M++ +
Sbjct: 474 ------QSLKLSEVL----------------------ADPEAETAEEQLIKQFMKKDLEK 505
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+L LNP+E+ +++ RFG++DG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 506 VLDSLNPREKQVIKWRFGMDDGRMKTLQEIGEMMGVSRERIRQIESCAFRKLK 558
>gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa]
gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa]
Length = 567
Score = 111 bits (277), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 75/215 (34%), Positives = 120/215 (55%), Gaps = 5/215 (2%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
D++DPLR F + +LL+A EE EL IQDL++LE+ + +L+ +FG EP+ +WA A
Sbjct: 252 DQSDPLRFFRGASSSSRLLSATEEVELSEGIQDLLKLERIEEELKERFGGEPSFAQWAAA 311
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
G+ L+ L+ G ++K+I +N+RLV+ +AK YQG G++L DL+QEG GL++ E
Sbjct: 312 AGVDQLTLRKRLNYGILCKDKMIKSNVRLVISIAKNYQGTGMNLQDLVQEGCRGLVRGAE 371
Query: 372 KFKPQAGCRFANTGVEIPDISVQKQL--MRQHVRNLLTLLNPKERCI-VRLRFGIEDGKP 428
KF G +F+ +V+K L + +R +++ R R + E+G+
Sbjct: 372 KFDASKGFKFSTYAHWWIKQAVRKSLSDRSRTIRLPFHMVDATYRVKEARKQLYSENGRH 431
Query: 429 KSLSEVGNIFGLSKERVRQ--LESRALYRLKQSLG 461
EV GLS +R+ L +A L Q +G
Sbjct: 432 PDDKEVAEAAGLSMKRLSAVLLTPKAPRSLDQKMG 466
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 50/171 (29%), Positives = 84/171 (49%), Gaps = 33/171 (19%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
R+++ + +L S+ GR P E A+A GLS + L + L + + R
Sbjct: 416 RVKEARKQLYSENGRHPDDKEVAEAAGLSMKRLSAVLLTPKAPRS--------------- 460
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLL 406
Q G ++ L E + A+ E + + K+ M++ + +L
Sbjct: 461 LDQKMGFNMDLKLSEVT------------------ADPEAETAEDLLMKEFMKKDLAKVL 502
Query: 407 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L+P+E +VR RFG+EDG+ K+L E+G + G+S+ERVRQ+E A +LK
Sbjct: 503 GSLSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFRKLK 553
>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 = 111 bits (277), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q + LE K L + G+EPT+ +WAKA +
Sbjct: 9 DPVRAYLREIGRVPLLTHEEEILYAKRVQRFVALETLKESLTEELGQEPTIAQWAKAAKM 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ ++L+S + +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 TQKELRSAIEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 129 PTKGYRFST 137
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 42/54 (77%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P+++ ++ LRFG+ DGKP +L+++G+I +S+ERVRQ+E AL +L++
Sbjct: 254 LMEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIEREALAKLRK 307
>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 = 111 bits (277), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 65/189 (34%), Positives = 105/189 (55%), Gaps = 13/189 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L +Q L++LE + L REPTL EWA+A LS LK + G
Sbjct: 23 LLTHEQEITLGKTVQQLMKLEAIRDDLTETMDREPTLAEWAEATNLSPEALKKTVEIGQQ 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+++K++ +NLRLVV +AK+Y+G + + DL+QEGS+GL + VEKF P G RF+
Sbjct: 83 AKDKMMRSNLRLVVSIAKKYRGSKLDMMDLIQEGSLGLCRGVEKFDPLKGYRFSTYAYWW 142
Query: 389 PDISVQKQL--------MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
++ + + + H+ L+ + +R + +E G+P ++SEV L
Sbjct: 143 IRQAITRAIADTGRTIRLPIHINEKLSKIRKAQREV-----SLELGRPATVSEVAEKVSL 197
Query: 441 SKERVRQLE 449
E+VR+L+
Sbjct: 198 PAEKVRELQ 206
Score = 60.1 bits (144), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 52/81 (64%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + L+++ + LL L +++ ++ +RFG++DGK K+L+++G+ +S+ERVRQ+
Sbjct: 238 PEEYATQNLLKRDIGQLLARLTERQKDVISMRFGLDDGKKKTLAQIGHDLDISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL L+ + G Y A
Sbjct: 298 ERKALRTLRHTGRGLKEYTMA 318
>gi|443327898|ref|ZP_21056505.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442792509|gb|ELS01989.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 318
Score = 111 bits (277), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 57/130 (43%), Positives = 82/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
ND +R +L LLT +EE ++Q I L K K LQ + G+EPT +WAK
Sbjct: 8 NDLVRSYLKEIGRVDLLTHEEEIHYAKRVQREIALVKIKDSLQEKLGQEPTYSQWAKEAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS ++LK+ L +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSVKELKTTLEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 61.6 bits (148), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R+ + L++ L P+++ ++ LRFG+ DGKP +L+++G +S+ERVRQ+E AL +L+
Sbjct: 247 LRKDLSRLMSELTPQQQEVISLRFGLRDGKPLTLAKIGTFLSISRERVRQIEREALTKLR 306
Query: 458 Q 458
Q
Sbjct: 307 Q 307
>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 = 110 bits (276), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL A+EE EL +I DL+ LE+ + ++ Q EPT +WA A+ +
Sbjct: 94 DSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDEIDDQLDDEPTDADWANAVDM 153
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L+ G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 154 PLPAFRRRLYQGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 213
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 214 HEKGYKFST 222
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 59/77 (76%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L+ L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 315 FIESDGETPEDEVSKSLLREDLESVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 374
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 375 TRERIRQIEAKALRKLR 391
>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 = 110 bits (276), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 73/203 (35%), Positives = 115/203 (56%), Gaps = 14/203 (6%)
Query: 183 NPKLNGAEFTDISLTSSLGYPLE--EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRK 240
N K N EF I+ Y ++ EVK+ + F +R K K+ +P+V + S
Sbjct: 21 NFKKNWLEFNLINNVEKNFYEVKKNEVKKIIKS-FNTQREFKNKIEEPEVAK---FQSET 76
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
V K +D +R +L KLL +EE +L +I L++ E K L+ + G
Sbjct: 77 KPVHKS-------DDSVRWYLQLIGKVKLLKPEEEIQLAREISQLLQWEHIKVFLKEKLG 129
Query: 301 REPTLIEWAKAIGLS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
REPT +EW+ A +S + K+ L++ ++E++I ANLRLVV +AK+Y RG+SL DL+
Sbjct: 130 REPTALEWSAACKISDVQKFKTVLYNSRKAKERMIAANLRLVVSIAKRYSNRGMSLQDLV 189
Query: 360 QEGSMGLMKSVEKFKPQAGCRFA 382
QEGS+GL+++ EKF + G +F+
Sbjct: 190 QEGSLGLIRATEKFDSEKGFKFS 212
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E PD V+K ++R +R+++ L+ +ER ++R+R+G++DGK ++L E+G IF +
Sbjct: 307 FIEADQESPDEHVEKSMLRDDLRDVINSLSLRERDVIRMRYGLDDGKIRTLEEIGQIFSV 366
Query: 441 SKERVRQLESRALYRLKQ 458
++ERVRQ+E++A+ +L+Q
Sbjct: 367 TRERVRQIEAKAIRKLRQ 384
>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 = 110 bits (275), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 56/130 (43%), Positives = 81/130 (62%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E L Q+Q L L + K L QFG EPT +EW++A G
Sbjct: 8 TDLVRTYLREIGRVPLLTHEQEIVLGKQVQHLSLLHEMKETLTEQFGHEPTDVEWSQAAG 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L+ + G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSLVELQQAIEQGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 44/61 (72%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MR + L++ L ++R ++ LRFG+EDG+ +LS++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 MRADLEKLMSELTTQQREVIALRFGLEDGQAMTLSKIGDRLNISRERVRQIEREALTKLR 306
Query: 458 Q 458
+
Sbjct: 307 K 307
>gi|428770639|ref|YP_007162429.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428684918|gb|AFZ54385.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 318
Score = 110 bits (275), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 65/206 (31%), Positives = 113/206 (54%), Gaps = 13/206 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L LLT +EE L QIQ+L+ LEK++ L+ + REP+ EWA+A +
Sbjct: 9 DTIRVYLKEIGRIPLLTKEEEIVLAKQIQELVALEKKRETLKKKLEREPSKKEWAEAAKI 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++L ++ G ++ K++ ANLRLVV +AK+Y + L DL+QEG++G+ + VEKF
Sbjct: 69 SEKNLDIKISRGEKAKRKMVEANLRLVVSIAKKYLKHNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P+ G RF+ ++ + + + H+ L + +R + E G
Sbjct: 129 PKKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQR-----KLSEEKG 183
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRA 452
+P +++E+ L+ E+VR +A
Sbjct: 184 RPATIAELSEALELTTEQVRDYLGKA 209
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/57 (42%), Positives = 45/57 (78%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+R +++ L +++ ++RLR+G++DGKP +LS++G I +S+ERVRQ+E AL +L++
Sbjct: 251 LRRMMSDLTQQQQDVIRLRYGLDDGKPLTLSKIGTILNISRERVRQIEREALTKLRK 307
>gi|359462714|ref|ZP_09251277.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 331
Score = 110 bits (274), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 67/199 (33%), Positives = 112/199 (56%), Gaps = 7/199 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +RL+L LLT ++E +L ++Q ++RLE K +L G EP++ W KA
Sbjct: 21 SDNVRLYLRDIGRSPLLTPEQELQLGREVQTMVRLEAVKDQLAQSCGEEPSMETWTKAAD 80
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L++ L G+ +++K+I ANLRLVV +AK+Y+ R + L DL+QEG++GL ++ EK+
Sbjct: 81 LEIAELQTLLEKGHKAKQKMITANLRLVVTIAKKYRDRNLELLDLIQEGTLGLERAAEKY 140
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVRLRFGIEDGKP 428
PQ G RF+ + + + Q +R +L LN +R L + G+
Sbjct: 141 DPQRGFRFSTYAYWWIRQGITRAIAEQGRTIRLPIHLTEALNKIKRTQRELSQSL--GRS 198
Query: 429 KSLSEVGNIFGLSKERVRQ 447
+ +EV L+ E+V+Q
Sbjct: 199 PTTAEVAQALSLTPEKVQQ 217
Score = 52.8 bits (125), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 50/77 (64%), Gaps = 4/77 (5%)
Query: 386 VEIPDIS----VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E PD S V + + + ++ LL L P++R ++ LR+G+ DG+ +L+ VG +S
Sbjct: 244 IEAPDSSPEKFVSDKTLSESLQMLLATLTPQQREVLTLRYGLIDGRELTLAAVGRRMDIS 303
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQL++ AL +L++
Sbjct: 304 RERVRQLQNAALSQLQK 320
>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 = 110 bits (274), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 56/129 (43%), Positives = 84/129 (65%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q L+ LEK + ++ + G+EPT +WAKA L
Sbjct: 9 DPVRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLREEIIEETGQEPTESQWAKAAKL 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S R+ +S + SG +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SKREFRSIVESGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 129 PTKGYRFST 137
Score = 50.1 bits (118), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 86/184 (46%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L Q GR T+ E A+ + L+ + ++ L ++ +LR+
Sbjct: 166 EKLNKIKKAQRELSQQKGRAATVTELAEELDLTPKQVREYLERARQP----LSLDLRV-- 219
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L DLL++ +S E F + +F +
Sbjct: 220 -----GDNQDTELGDLLEDDG----QSPEDFATHSSLQF-------------------DL 251
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 252 ERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKLRKRKAN 311
Query: 463 KASY 466
Y
Sbjct: 312 IQEY 315
>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 = 109 bits (273), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 57/130 (43%), Positives = 84/130 (64%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE Q+Q LI LEK K L+++ GREP+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLRAKLGREPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASY 466
+S+ERVRQ+E A+ +L++ G Y
Sbjct: 287 LNISRERVRQIEREAIAKLRKRKGNIREY 315
>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 = 109 bits (273), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 60/150 (40%), Positives = 94/150 (62%), Gaps = 5/150 (3%)
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
E +++ S KK +E D +RL+L +LL ADEE EL +I DL LE+ ++
Sbjct: 61 EATTTKEDSKKKSYTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLSELERTRT 115
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+L++ G EPT EWA+ +G + + L G ++EK++ +NLRLVV +AK+Y RG+
Sbjct: 116 ELEATIGCEPTDEEWAEEVGQALPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGL 175
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 176 SFQDLIQEGSLGLIRAAEKFDHEKGYKFST 205
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G+EDG+ K+L E+G IF +
Sbjct: 298 FIEADGETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQIFNV 357
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 358 TRERIRQIEAKALRKLR 374
>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 = 109 bits (273), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 57/130 (43%), Positives = 85/130 (65%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R++L LL DEE EL Q+Q L++L K LQ+ G E + +WA+A
Sbjct: 48 TDLVRVYLQEIGRVPLLGRDEEVELAQQVQKLMKLTALKESLQTSLGSEYSDEQWAEAAK 107
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +LK ++ +G+ +++K+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF
Sbjct: 108 VGLFELKRQVLAGSRAKKKMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKF 167
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 168 DPTKGYRFST 177
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ S ++ +R+ V+ LL L +ER ++ +R+G+ DG+ SLSE+G LS+ERVRQ+
Sbjct: 278 PEESAVQESLRRDVKELLDDLTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQI 337
Query: 449 ESRALYRLKQ 458
ES+AL +L+Q
Sbjct: 338 ESKALQKLRQ 347
>gi|449017038|dbj|BAM80440.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 721
Score = 109 bits (272), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 54/135 (40%), Positives = 84/135 (62%), Gaps = 2/135 (1%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G ++D +R +L+ +LL EE EL Q+ L+ LE+ + + Q G+ PT +EWA
Sbjct: 401 GERKDDTIRSYLYEIGRYQLLQPGEEVELSRQVCVLMDLERFQKSFREQHGKSPTELEWA 460
Query: 310 KAIGLS--CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+ G L+ + G S++E+++ ANLRLVV +AK+Y RG++L DL+QEGS+GL+
Sbjct: 461 RGCGYGEDVEALRKHIRDGRSAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLI 520
Query: 368 KSVEKFKPQAGCRFA 382
+ VEKF G RF+
Sbjct: 521 RGVEKFDAGRGFRFS 535
Score = 68.6 bits (166), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 92/193 (47%), Gaps = 34/193 (17%)
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + + L + D I + ++ +K L +Q GR P E +++G+
Sbjct: 547 TRAISDSSRSIRLPVHVHDTISMIRKHTKALHTQLGRPPREDEICESVGIDI-------- 598
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
A RL++ ++ +H ++G +S+ P+
Sbjct: 599 -----------AKYRLIMECSQNIVSLETPMHGTDDIHNLG--ESL--ISPE-------- 635
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
E + +V + +R + +L L +ER ++R+RFG+ DG+P++L EVG F +++ER
Sbjct: 636 --ERSEDTVSRDTLRDSIEKVLRCLTAREREVIRMRFGLADGRPRTLEEVGVKFNVTRER 693
Query: 445 VRQLESRALYRLK 457
+RQ+ES+AL +L+
Sbjct: 694 IRQIESKALKKLR 706
>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 = 109 bits (272), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 66/202 (32%), Positives = 110/202 (54%), Gaps = 13/202 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE L Q+Q L+ L++ K KL + G + +EW++A G
Sbjct: 17 TDTVRTYLQEIGRVPLLTHEEEIVLGKQVQCLMALQETKDKLDEELGHDANRVEWSQAAG 76
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S +L +L G ++ K+I ANLRLVV VAK+YQ R + DL+QEG++GL + VEKF
Sbjct: 77 ISETELVHQLRHGERAKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLERGVEKF 136
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIED 425
P G +F+ ++ + + +Q H+ L + ++R + + +
Sbjct: 137 DPMKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKREQRVLAQ-----KL 191
Query: 426 GKPKSLSEVGNIFGLSKERVRQ 447
G+ S+ E+G L+ E+VR+
Sbjct: 192 GRSPSVGEIGQELDLTPEQVRE 213
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 38/80 (47%), Positives = 57/80 (71%), Gaps = 5/80 (6%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
D +VQ+ L RQ +RN+LT L P+++ ++ LRFG+ DG SL++VG G+S+ERVRQLE
Sbjct: 249 DYTVQQSL-RQDIRNMLTELTPQQKEVINLRFGLIDGTQLSLAKVGQRMGISRERVRQLE 307
Query: 450 SRALYRLKQSLGGKASY-GY 468
+AL L++ KA++ GY
Sbjct: 308 QQALKHLRRR---KATFQGY 324
>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 = 109 bits (272), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 61/146 (41%), Positives = 88/146 (60%), Gaps = 6/146 (4%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R S KK +E D +R++L +LL A+EE EL QI DL+ LE +S L
Sbjct: 64 RGQSKKKPFTE-----DSIRVYLQEIGRIRLLRAEEEIELARQIADLLDLEYIRSTLIEH 118
Query: 299 FGREPTLIEWAKAIGL-SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
GR PT EWA A + + R LH G +++K++ +NLRLVV +AK+Y RG+S D
Sbjct: 119 LGRVPTDEEWAIASDMPNMRQFNRRLHIGRKAKDKMVQSNLRLVVSIAKKYMNRGLSFQD 178
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFAN 383
L+QEGS+GL+++ EKF + G +F+
Sbjct: 179 LIQEGSLGLIRAAEKFDHEKGYKFST 204
Score = 79.0 bits (193), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 297 FIEADGETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 356
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 357 TRERIRQIEAKALRKLRH 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 = 108 bits (271), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 57/149 (38%), Positives = 89/149 (59%), Gaps = 5/149 (3%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T R + KK +E D +RL+L +LL A+EE EL +I DL+ LE+ +
Sbjct: 47 TSRRRTQTKKKHYTE-----DSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERVYDQ 101
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L R+P EWA+A+ + + LH G +++K++ +NLRLVV +AK+Y RG+S
Sbjct: 102 LAETLQRDPQDAEWAEAVDMPLPKFQRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLS 161
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEGS+GL+++ EKF + G +F+
Sbjct: 162 FQDLIQEGSLGLIRAAEKFDHEKGYKFST 190
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+ +ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 283 FIESDGETPEDEVSKSLLREDLESVLGTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNV 342
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 343 TRERIRQIEAKALRKLR 359
>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 = 108 bits (271), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I +L+ LE+ + +L + R+P EWA + L
Sbjct: 81 DSIRLYLQEIGRIRLLRADEEIELARKIAELLELERARERLCERLERDPRDSEWAAEVSL 140
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 141 PLPTFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 200
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 201 HEKGYKFST 209
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIESDGETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLRH 379
>gi|32351878|dbj|BAC78528.1| plastid sigma factor 2A [Oryza sativa Japonica Group]
Length = 564
Score = 108 bits (271), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 60/170 (35%), Positives = 94/170 (55%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTAD 273
R E R+++ + + T T S KKK S+G LW R+LLTA
Sbjct: 208 RQTEGRARRTRAAIKAATIVRTSPKPATSSKKKRSKGASSGTNPLGSLWKMTGRRLLTAK 267
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE E IQDL++LE +++L G +PT +WA A G+ R L+ L G + ++
Sbjct: 268 EEVEFSEGIQDLLKLEAIQAELAEYNGGQPTFAQWATAAGVDERTLRKRLDHGIYCKNRM 327
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ +N+RLV+ +A++++G G+ L+DL+QEG GL++ EKF G RF+
Sbjct: 328 VTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFST 377
Score = 64.7 bits (156), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 43/60 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+RQ+ES A +L+
Sbjct: 487 MKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLR 546
>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 = 108 bits (271), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 57/145 (39%), Positives = 87/145 (60%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R + KK+ +E D +RL+L +LL ADEE EL +I DL+ LE+ + KL +
Sbjct: 59 RVQTKKKQFTE-----DSIRLYLQEIGRIRLLRADEEIELARKIADLLELERMREKLLND 113
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
REP EWA + + L G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 114 LDREPHDREWAAVASMPLNQFRHRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 173
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 174 IQEGSLGLIRAAEKFDHEKGYKFST 198
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E+P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 291 FIEADGEMPEDQVSKSLLREDLEGVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 350
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 351 TRERIRQIEAKALRKLR 367
>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 = 108 bits (270), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 58/130 (44%), Positives = 81/130 (62%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L LE+ K L Q G EPTL EWAKA
Sbjct: 20 TDLVRTYLQEIGRVPLLTHEQEILYGKQVQRLNALEQTKESLFEQLGYEPTLCEWAKASS 79
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L+S + +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 80 LSEAELQSCIRAGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 139
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 140 DPTKGYRFST 149
Score = 52.4 bits (124), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 43/61 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + L+ L ++R ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 259 MQVDLEKLMADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIEREALSKLR 318
Query: 458 Q 458
+
Sbjct: 319 K 319
>gi|326518320|dbj|BAJ88189.1| predicted protein [Hordeum vulgare subsp. vulgare]
gi|326533296|dbj|BAJ93620.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 552
Score = 108 bits (270), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 58/142 (40%), Positives = 85/142 (59%), Gaps = 1/142 (0%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KKK S+G +PL LW RKLLTA EE EL IQDL++LE + +L G
Sbjct: 225 SSKKKRSKGPSTMNPLG-SLWKMTGRKLLTAKEEVELSNGIQDLLKLEAIQGELAEYNGG 283
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
+PT +WA A G L+ L G + +++ +N+RLV+ +A++++G G+ L+DL+QE
Sbjct: 284 QPTFPQWAAAAGTDENTLRKRLDHGIHCKNRMVTSNVRLVISIAREFEGPGLELYDLIQE 343
Query: 362 GSMGLMKSVEKFKPQAGCRFAN 383
G GL++ EKF G RF+
Sbjct: 344 GMQGLIRGAEKFDASKGFRFST 365
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/76 (42%), Positives = 52/76 (68%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ E + + + M++ V L L+P+ER +V+LRFGI DG+ ++L E+GNI G+S
Sbjct: 459 ADPSAETAEEMLNRMSMKKDVHQALDTLSPRERQVVKLRFGINDGRIRTLQEIGNIMGVS 518
Query: 442 KERVRQLESRALYRLK 457
+ER+RQ+ES A +L+
Sbjct: 519 RERIRQIESGAFRKLR 534
>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 = 108 bits (270), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 59/145 (40%), Positives = 89/145 (61%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + KL
Sbjct: 65 RRAQTKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEH 120
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
+ REP EWA A+ + + + L G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 121 YHREPNEKEWANAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 180
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 181 IQEGSLGLIRAAEKFDHEKGYKFST 205
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 298 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 357
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 358 TRERIRQIEAKALRKLRH 375
>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 = 108 bits (269), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 59/145 (40%), Positives = 89/145 (61%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + KL
Sbjct: 50 RRAQTKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEH 105
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
+ REP EWA A+ + + + L G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 106 YHREPNEKEWANAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 165
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 166 IQEGSLGLIRAAEKFDHEKGYKFST 190
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 283 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 342
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 343 TRERIRQIEAKALRKLRH 360
>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 = 108 bits (269), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL +I DL+ LE+ + KL EP EWA A+ +
Sbjct: 81 DSIRLYLQEIGRIRLLRADEEIELARRIADLLELERIREKLVEHNHCEPEDREWASAVDM 140
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + + L+ G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 141 ALPEFRRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 200
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 201 HEKGYKFST 209
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 58/77 (75%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLR 378
>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 = 108 bits (269), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 59/145 (40%), Positives = 89/145 (61%), Gaps = 4/145 (2%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A KKK D +RL+L +LL ADEE EL +I DL+ LE+ + KL
Sbjct: 65 RRAQTKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIREKLIEH 120
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
+ REP EWA A+ + + + L G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 121 YHREPNEKEWANAVDMRLPEFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 180
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 181 IQEGSLGLIRAAEKFDHEKGYKFST 205
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 298 FIESDGETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 357
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 358 TRERIRQIEAKALRKLRH 375
>gi|2385506|dbj|BAA22190.1| RpoD2 protein [Synechococcus elongatus PCC 7942]
Length = 320
Score = 108 bits (269), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 66/201 (32%), Positives = 109/201 (54%), Gaps = 13/201 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L +LLTA+EE Q+Q L+ L +++L+ + G EP+ EWA A+ L
Sbjct: 11 DLVRAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDL 70
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ DL E+ G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 71 NLEDLDREIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFD 130
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G +F+ ++ + + +Q H+ L L +R + + + G
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQ-----QLG 185
Query: 427 KPKSLSEVGNIFGLSKERVRQ 447
+ + SE+ + L E+VR+
Sbjct: 186 RSATASELAEVLELPLEQVRE 206
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+++ +R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+L
Sbjct: 240 PSDYVEQESLRRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKL 299
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 300 ERQAMDHLRR 309
>gi|126659335|ref|ZP_01730471.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110]
gi|126619417|gb|EAZ90150.1| RNA polymerase sigma factor SigD [Cyanothece sp. CCY0110]
Length = 318
Score = 107 bits (268), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q L+ LEK + + + G+EPT I+WAK +
Sbjct: 9 DPVRAYLKEIGRVPLLTHEEEILYAKRVQRLVNLEKLRDDIIEETGQEPTEIQWAKTAKI 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++L+S + G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SRKELQSIIEIGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 129 PTKGYRFST 137
Score = 52.0 bits (123), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 86/182 (47%), Gaps = 34/182 (18%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR T++E A+ + L+ + ++ L ++ +LR+
Sbjct: 168 LNKIKKAQRELSQQKGRAATVVELAEELDLTPKQVREYLERARQP----LSLDLRV---- 219
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L DLL++ +S E F + +F +
Sbjct: 220 ---GDNQDTELGDLLEDDG----QSPEDFATHSSLQF-------------------DLER 253
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 254 LMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKLRKRKANIQ 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>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 = 107 bits (268), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 56/145 (38%), Positives = 91/145 (62%), Gaps = 5/145 (3%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+ S KK +E D +R++L +LL A+EE EL +I DL+ LE+ +L+ +
Sbjct: 53 RETSKKKPYTE-----DSIRVYLQEIGRIRLLRAEEEIELARKIADLLELERIYEQLRKR 107
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
GR P EWA+A+ + + L+ G +++K++ +NLRLVV +AK+Y RG+S DL
Sbjct: 108 LGRFPNNREWAEAVEMELPAFQRRLYLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDL 167
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL+++ EKF + G +F+
Sbjct: 168 IQEGSLGLIRAAEKFDHEKGYKFST 192
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 285 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 344
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 345 TRERIRQIEAKALRKLR 361
>gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium]
Length = 591
Score = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 109/204 (53%), Gaps = 15/204 (7%)
Query: 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI 312
++D +R +L +LL EE EL Q+ L+ LE+ + + + G+ PT EWA+
Sbjct: 274 KDDTIRSYLREIGRYQLLHPGEEIELSKQVCILMDLEQFQRSFREEHGKSPTESEWAQGC 333
Query: 313 GLS--CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G L+ + G ++E+++ ANLRLVV +AK+Y RG++L DL+QEGS+GL++ V
Sbjct: 334 GYGDDVEKLREHIRDGRKAKERMVTANLRLVVSIAKRYSNRGVALQDLIQEGSIGLIRGV 393
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQL--------MRQHVRNLLTLLNPKERCIVRLRFG 422
EKF + G RF+ S+ + + + HV + ++L+ + + +
Sbjct: 394 EKFDAERGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISLIRKQTKAL-----Q 448
Query: 423 IEDGKPKSLSEVGNIFGLSKERVR 446
+E G+P S E+ G+ + + R
Sbjct: 449 VELGRPPSEEEICESVGIDRAKYR 472
Score = 73.2 bits (178), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 50/193 (25%), Positives = 94/193 (48%), Gaps = 34/193 (17%)
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + + L + D I L ++++K LQ + GR P+ E +++G+
Sbjct: 417 TRAISDSSRSIRLPVHVHDTISLIRKQTKALQVELGRPPSEEEICESVGID--------- 467
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
A RLV+ ++ +SL L+ G P+
Sbjct: 468 ----------RAKYRLVMECSRNI----VSLETPLRSGDDVHFLGESLIAPE-------- 505
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
E + + + +R+ + +L L+ +ER ++R+RFG+ DG+P++L EVG+ F +++ER
Sbjct: 506 --ERAEENCSRDTLRESIEKVLHCLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTRER 563
Query: 445 VRQLESRALYRLK 457
+RQ+ES+AL +L+
Sbjct: 564 IRQIESKALKKLR 576
>gi|62734062|gb|AAX96171.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group]
gi|125589330|gb|EAZ29680.1| hypothetical protein OsJ_13741 [Oryza sativa Japonica Group]
Length = 563
Score = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 84/142 (59%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KKK S+G LW R+LLTA EE E IQDL++LE +++L G
Sbjct: 236 SSKKKRSKGASSGTNPLGSLWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELAEYNGG 295
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
+PT +WA A G+ R L+ L G + +++ +N+RLV+ +A++++G G+ L+DL+QE
Sbjct: 296 QPTFAQWATAAGVDERTLRKRLDHGIYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQE 355
Query: 362 GSMGLMKSVEKFKPQAGCRFAN 383
G GL++ EKF G RF+
Sbjct: 356 GMQGLIRGAEKFDASKGFRFST 377
Score = 64.7 bits (156), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 43/60 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+RQ+ES A +L+
Sbjct: 487 MKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLR 546
>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 = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 59/137 (43%), Positives = 83/137 (60%), Gaps = 7/137 (5%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA---- 309
D +RL+L LL DEE L ++QD ++L + +LQ + GREPTL EWA
Sbjct: 43 TDLVRLYLQEIGRVPLLGRDEEVALAQRVQDYMKLLDVRLRLQKELGREPTLAEWAARAN 102
Query: 310 ---KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+ L+ L+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 103 QYPEWANLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGL 162
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P+ G RF+
Sbjct: 163 ERAVEKFDPKKGYRFST 179
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 54/77 (70%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DIS ++ +MR+ ++ LL L +ER ++R+RFG+ DG+ SL+E+G LS
Sbjct: 273 LETDDISPEETMMREALHRDLQQLLADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLS 332
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 333 RERVRQIEAKALQKLRQ 349
>gi|297611772|ref|NP_001067832.2| Os11g0448400 [Oryza sativa Japonica Group]
gi|62701714|gb|AAX92787.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group]
gi|108864350|gb|ABA93405.2| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica
Group]
gi|255680064|dbj|BAF28195.2| Os11g0448400 [Oryza sativa Japonica Group]
Length = 564
Score = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 84/142 (59%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KKK S+G LW R+LLTA EE E IQDL++LE +++L G
Sbjct: 236 SSKKKRSKGASSGTNPLGSLWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELAEYNGG 295
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
+PT +WA A G+ R L+ L G + +++ +N+RLV+ +A++++G G+ L+DL+QE
Sbjct: 296 QPTFAQWATAAGVDERTLRKRLDHGIYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQE 355
Query: 362 GSMGLMKSVEKFKPQAGCRFAN 383
G GL++ EKF G RF+
Sbjct: 356 GMQGLIRGAEKFDASKGFRFST 377
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 43/60 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+RQ+ES A +L+
Sbjct: 487 MKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLR 546
>gi|87301677|ref|ZP_01084517.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
gi|87283894|gb|EAQ75848.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
Length = 349
Score = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 76/225 (33%), Positives = 121/225 (53%), Gaps = 15/225 (6%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
+SR+A + + D D +R +L LLT ++E L Q+Q+L+RLE+ + +L+
Sbjct: 19 DSRQAPIAVRTLPPVD-GDLVRSYLRDIGRVPLLTHEQEITLGRQVQELMRLEEAEQELE 77
Query: 297 SQFG-REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISL 355
+ G ++P+ EWA A GLS LK +L SG ++E+++ ANLRLVV VAK+Y R + L
Sbjct: 78 MRAGGQKPSAAEWASAAGLSPALLKRKLSSGRRAKERMVAANLRLVVSVAKKYTKRNMEL 137
Query: 356 HDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLT 407
DL+QEG++GL++ VEKF P G +F+ + + + + H+ L
Sbjct: 138 LDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLN 197
Query: 408 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
L +R E G+ +LSE+ L +E V+ L RA
Sbjct: 198 KLKKGQR-----ELSQELGRTPTLSELAVCVELPEEEVKDLLCRA 237
Score = 54.7 bits (130), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 66/262 (25%), Positives = 109/262 (41%), Gaps = 56/262 (21%)
Query: 218 RRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG-------FDRNDPLR-------LF 260
RR+K+R V+ + V+ + Y R + + EG ++ DP R +
Sbjct: 109 RRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAY 168
Query: 261 LWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
W + TR + L I + L +L+K + +L + GR PTL E A + L
Sbjct: 169 WWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLSELAVCVELPEE 228
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-EGSMGLMKSVEKFKPQ 376
++K L V K G L DLLQ +G++
Sbjct: 229 EVKDLLCRARQP-----------VSLETKVGDGEDTELLDLLQGDGTL------------ 265
Query: 377 AGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 436
P SV + +R +R LL L +R ++ +R+GI+ +P SL+ +G
Sbjct: 266 ------------PAESVDSECLRGDMRALLEQLPELQRSVLSMRYGIDVEEPMSLTGIGR 313
Query: 437 IFGLSKERVRQLESRALYRLKQ 458
I G+S++R+R LE L L++
Sbjct: 314 ILGMSRDRIRNLERDGLASLRR 335
>gi|218194307|gb|EEC76734.1| hypothetical protein OsI_14770 [Oryza sativa Indica Group]
Length = 563
Score = 107 bits (268), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 84/142 (59%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KKK S+G LW R+LLTA EE E IQDL++LE +++L G
Sbjct: 235 SSKKKRSKGASSGTNPLGSLWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELAEYNGG 294
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
+PT +WA A G+ R L+ L G + +++ +N+RLV+ +A++++G G+ L+DL+QE
Sbjct: 295 QPTFAQWATAAGVDERTLRKRLDHGIYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQE 354
Query: 362 GSMGLMKSVEKFKPQAGCRFAN 383
G GL++ EKF G RF+
Sbjct: 355 GMQGLIRGAEKFDASKGFRFST 376
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 43/60 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+RQ+ES A +L+
Sbjct: 486 MKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLR 545
>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 = 107 bits (267), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 60/151 (39%), Positives = 89/151 (58%), Gaps = 2/151 (1%)
Query: 235 TYNSRKASVKKKL--SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
T SR +VK+ + D D +R +L LLT ++E Q+Q ++ + K
Sbjct: 3 TIKSRPTTVKQTYMGARQSDSTDTIRSYLHEIGRVPLLTHEQEIVFGKQVQQMMAFLEAK 62
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
L+ + REPT EWA+A+G S DLK+ + G S++K+I ANLRLVV +AK+YQ R
Sbjct: 63 ETLEKKLKREPTEEEWAEAVGHSVGDLKNLVKIGRRSKQKMIEANLRLVVAIAKKYQKRN 122
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ DL+QEG++GL + VEKF P G +F+
Sbjct: 123 LEFLDLIQEGTLGLERGVEKFDPMRGYKFST 153
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 51/78 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++L+R+ + +LL L ++R ++ LRFG++DG+ SL++VG LS+ERVRQL
Sbjct: 254 PENYITQELLREDLESLLAELTTQQRDVIILRFGLKDGRELSLAKVGEKLSLSRERVRQL 313
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 314 EHQALAHLRRRRANVQEY 331
>gi|186682180|ref|YP_001865376.1| SigH/RpoD family RNA polymerase sigma factor [Nostoc punctiforme
PCC 73102]
gi|186464632|gb|ACC80433.1| RNA polymerase, sigma 70 subunit SigH, RpoD family [Nostoc
punctiforme PCC 73102]
Length = 321
Score = 107 bits (267), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 60/148 (40%), Positives = 87/148 (58%), Gaps = 5/148 (3%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T++ KAS K + D +R +L LLT ++E ++Q L+ + E K
Sbjct: 5 TFSDTKASNTNKAT-----TDTVRAYLKEIGRIPLLTQEQEIIFAQEVQQLMTILAESEK 59
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L + R PTL EWA + LS ++L +L+ G ++ K+I ANLRLVV +AKQYQ R +
Sbjct: 60 LTIELKRTPTLSEWANQMQLSEQELLQQLNQGKKAKHKMITANLRLVVSIAKQYQRRNLE 119
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L DL+QEG++GL + VEKF P G RF+
Sbjct: 120 LMDLIQEGTLGLERGVEKFNPALGYRFS 147
Score = 47.8 bits (112), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 37/52 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ Q V +LL+ L+ +++ I+ L FG+ DG+ SL ++G G+S+ERVRQ+E
Sbjct: 258 LNQEVNSLLSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309
>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 = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL +I DL+ LE+++ KL + R P EWA ++ +
Sbjct: 66 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELEQKREKLWQELKRIPNDREWAASVEM 125
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L+ G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 126 ELPAFRRRLYLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 185
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 186 HEKGYKFST 194
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 287 FIEADGETPEDDVSKNLLREDLEHVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 346
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 347 TRERIRQIEAKALRKLR 363
>gi|359460652|ref|ZP_09249215.1| RNA polymerase sigma factor SigD [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 63/192 (32%), Positives = 105/192 (54%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+QDLI+L+ + +L Q R+P EW+ A LS +L+ LH G +
Sbjct: 23 LLTHEEEVTFGKQVQDLIKLQAIRDELAEQLERQPNDAEWSVAAQLSEAELQKALHEGEA 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
++ + + + H+ L + +R + + + G+ ++SE+ L
Sbjct: 143 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQ-----KLGRAATISELATALDL 197
Query: 441 SKERVRQLESRA 452
+ ++VR+ RA
Sbjct: 198 TTKQVREYLERA 209
Score = 55.8 bits (133), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 46/182 (25%), Positives = 87/182 (47%), Gaps = 34/182 (18%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L + GR T+ E A A+ L+ + ++ L L L V V
Sbjct: 168 LNKIKKTQRQLSQKLGRAATISELATALDLTTKQVREYLERARQP--------LSLDVRV 219
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L +L+++ S +S E F QA +R +
Sbjct: 220 G---DNQDTELGELIEDPS----ESPENFTLQAS-------------------LRGDLER 253
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L +++ ++ LRFG++DG+P +L+++G+ +S+ERVRQ+E AL +L++ +
Sbjct: 254 LMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKLRKRKADIS 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>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 = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 84/130 (64%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ GR+P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGRDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 41/54 (75%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L++
Sbjct: 254 LMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLRK 307
>gi|81300555|ref|YP_400763.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus
PCC 7942]
gi|123556657|sp|Q31ME3.1|RPOD2_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD2
gi|81169436|gb|ABB57776.1| group2 RNA polymerase sigma factor SigB [Synechococcus elongatus
PCC 7942]
Length = 320
Score = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 65/201 (32%), Positives = 109/201 (54%), Gaps = 13/201 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L +LLTA+EE Q+Q L+ L +++L+ + G EP+ EWA A+ L
Sbjct: 11 DLVRAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDL 70
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ DL ++ G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 71 NLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFD 130
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G +F+ ++ + + +Q H+ L L +R + + + G
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQ-----QLG 185
Query: 427 KPKSLSEVGNIFGLSKERVRQ 447
+ + SE+ + L E+VR+
Sbjct: 186 RSATASELAEVLELPLEQVRE 206
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+++ +R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+L
Sbjct: 240 PSDYVEQESLRRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKL 299
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 300 ERQAMDHLRR 309
>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 = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/134 (39%), Positives = 82/134 (61%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EWA
Sbjct: 156 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGREPDKKEWA 215
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 216 ALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 275
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 276 AEKFDHEKGYKFST 289
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 382 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 441
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 442 TRERIRQIEAKALRKLRH 459
>gi|284929771|ref|YP_003422293.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma
factor, cyanobacterial RpoD-like family [cyanobacterium
UCYN-A]
gi|284810215|gb|ADB95912.1| RNA polymerase sigma factor, sigma-70 family/RNA polymerase sigma
factor, cyanobacterial RpoD-like family [cyanobacterium
UCYN-A]
Length = 318
Score = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 65/206 (31%), Positives = 111/206 (53%), Gaps = 13/206 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LLT +EE ++Q + LEK + + G+EPT +WA+A +
Sbjct: 9 DPVRSYLREIGRVPLLTHEEEILYAKRVQRFVDLEKYRELFTKETGKEPTETQWAQAARI 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S R+L S + SG +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SRRELHSAIASGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G RF+ ++ + + + H+ L + +R + + R G
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQAR-----G 183
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRA 452
+ +++E+ L+ ++VR+ RA
Sbjct: 184 RDATIAELAEELDLTPKQVREYLERA 209
Score = 49.3 bits (116), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 40/62 (64%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L +++ ++ LRFG+ DG+P +L+++G +S+ERVRQ+E AL +L++
Sbjct: 254 LMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIEREALSKLRKRKANIQ 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>gi|427723688|ref|YP_007070965.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427355408|gb|AFY38131.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 318
Score = 107 bits (266), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R +L LLT +EE ++Q ++ LEK K++L EPTL EWAKA
Sbjct: 8 SDPVRSYLKEIGRVPLLTHEEEVVYSRRVQQMVALEKLKAELTEHQEDEPTLKEWAKAAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ ++LK + G +++K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ITQKELKKRMSIGAQAKQKMVEANLRLVVSVAKKYIKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 51.6 bits (122), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 46/70 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD +++ + +++ L +++ ++ LRFG+ DG+P +L+++G +S+ERVRQ+
Sbjct: 238 PDDFATSAALKRDLHRMISDLTAQQQEVLTLRFGLNDGQPHTLAKIGEHLSISRERVRQI 297
Query: 449 ESRALYRLKQ 458
E AL +L++
Sbjct: 298 EREALSKLRK 307
>gi|124025264|ref|YP_001014380.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str.
NATL1A]
gi|123960332|gb|ABM75115.1| Putative principal RNA polymerase sigma factor [Prochlorococcus
marinus str. NATL1A]
Length = 420
Score = 106 bits (265), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 84/134 (62%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+E ++ +S+ G P++ EWA
Sbjct: 103 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWA 162
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 163 VLADMPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 222
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 223 AEKFDHEKGYKFST 236
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 329 FIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 388
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 389 TRERIRQIEAKALRKLR 405
>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 = 106 bits (265), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 84/134 (62%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+E ++ +S+ G P++ EWA
Sbjct: 103 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWA 162
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 163 VLADMPLARFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 222
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 223 AEKFDHEKGYKFST 236
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 329 FIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 388
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 389 TRERIRQIEAKALRKLR 405
>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 = 106 bits (265), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 83/135 (61%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 135 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEW 194
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 195 AALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 254
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 255 AAEKFDHEKGYKFST 269
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 362 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 421
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 422 TRERIRQIEAKALRKLRH 439
>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 = 106 bits (265), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 83/135 (61%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 135 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDKKEW 194
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 195 AALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 254
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 255 AAEKFDHEKGYKFST 269
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 362 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 421
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 422 TRERIRQIEAKALRKLRH 439
>gi|357156833|ref|XP_003577591.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 552
Score = 106 bits (264), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 51/123 (41%), Positives = 78/123 (63%)
Query: 261 LWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
LW RKLLTA EE EL IQDL++LE +++L G +PT +WA A G + L+
Sbjct: 243 LWKLTGRKLLTAKEEVELSNGIQDLLKLEAIQAELAEYSGCQPTFPQWAAAAGTDEKTLR 302
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
L G S+ +++ +N+RLV+ +A++++G G+ L+DL+QEG GL++ EKF G R
Sbjct: 303 KRLAHGIYSKNRMVTSNVRLVISIAREFEGPGLELYDLIQEGMQGLIRGAEKFDASKGFR 362
Query: 381 FAN 383
F+
Sbjct: 363 FST 365
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 52/76 (68%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ E + + + M++ V L L P+ER +V+LRFG++DG+ ++L E+GNI G+S
Sbjct: 459 ADPSAETAEEMLNRMSMKKDVHQALDALGPRERQVVKLRFGLDDGRIRTLQEIGNIMGVS 518
Query: 442 KERVRQLESRALYRLK 457
+ER+RQ+E+ A +L+
Sbjct: 519 RERIRQIEAGAFRKLR 534
>gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma
akashiwo]
Length = 404
Score = 106 bits (264), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 56/132 (42%), Positives = 80/132 (60%), Gaps = 1/132 (0%)
Query: 253 RNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI 312
++D ++ ++ T +LTA EE L QI+ + +EK L+ GR+PT EW +
Sbjct: 71 QSDTMKEYVKDLRTVDMLTAQEEILLTRQIKRGMEIEKALVTLEKTLGRKPTEEEWVNFV 130
Query: 313 GL-SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
GL S D++ L + S+ +INANLRLVV AK YQ RG+S DL+QEG+ GL K+ E
Sbjct: 131 GLKSIDDIRKNLKRASKSKSAIINANLRLVVSTAKAYQYRGVSFQDLVQEGTCGLHKATE 190
Query: 372 KFKPQAGCRFAN 383
KF P+ G RF+
Sbjct: 191 KFDPRKGFRFST 202
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 93/176 (52%), Gaps = 30/176 (17%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDL--KSELHSGNSSREKLINANLRLVV 342
L + + K+ ++ REPTL E A+A GL+ + + + SS +K + +
Sbjct: 233 LFHIRRAKANFWTEHLREPTLAELAEATGLTPQKIVFYDTVKDKVSSIDKTVGIGTK--- 289
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ I++ D+ ++ P+ + Q + +RQ +
Sbjct: 290 --TNSMEKSQIAISDMCKDSR-----------------------NKPEETAQVESLRQDI 324
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L+P+E+ +VR+R+G++DG+ ++L E+G+IF +++ERVRQ+E+RAL++L+Q
Sbjct: 325 SRLINTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQIEARALHKLRQ 380
>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 = 106 bits (264), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 80/130 (61%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++ K KL + GREP+ EWA+ G
Sbjct: 9 TDSVRTYLREIGRVPLLTHEQEILYGKQVQQSAILQEGKEKLAKRLGREPSYAEWAENAG 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S ++LK L G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 VSLKELKQALEDGQTAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 128
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 129 DPTKGYRFST 138
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 52/87 (59%), Gaps = 4/87 (4%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + G D ++Q MR + L+ L ++R ++ LRFG+E+G+ +L+++G+
Sbjct: 229 GDLLEDDGASPEDYALQSS-MRSDLEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDR 287
Query: 438 FGLSKERVRQLESRALYRL---KQSLG 461
+S+ERVRQ+E AL +L KQ +G
Sbjct: 288 LNISRERVRQIEREALTKLRKRKQDMG 314
>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 = 106 bits (264), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 57/150 (38%), Positives = 89/150 (59%), Gaps = 9/150 (6%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+ VKKK D +RL+L +LL ADEE EL +I DL+ +E+ + +L +
Sbjct: 91 RRTQVKKKHYT----EDSIRLYLQEIGRIRLLRADEEIELARKIADLLEMERVRDRLCQE 146
Query: 299 FGREPTLIE-----WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
G +E WAK +G++ + L G ++EK++ +NLRLVV +AK+Y RG+
Sbjct: 147 LGCTAEELERNPEPWAKELGMTVPAFRHRLFVGRKAKEKMVQSNLRLVVSIAKKYMNRGL 206
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 207 SFQDLIQEGSLGLIRAAEKFDHEKGYKFST 236
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G +F +
Sbjct: 329 FIESDGETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNV 388
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 389 TRERIRQIEAKALRKLRH 406
>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 = 105 bits (263), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 82/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
ND +R +L LLT +EE ++Q I++EK K LQ + G EPT +WA A
Sbjct: 8 NDLVRSYLKEIGRVPLLTHEEEILYAKRVQQQIKVEKIKESLQDKLGEEPTESQWADAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ +L++ + +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ITVEELRNIIQAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/81 (38%), Positives = 52/81 (64%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D + L R+ + L+T L P++R ++ LRFG+ DGKP +L+++G+
Sbjct: 228 GDMLEDTGASPEDYATYSSL-RKDLDKLMTDLTPQQREVISLRFGLSDGKPLTLAKIGDC 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E AL +L++
Sbjct: 287 LNISRERVRQIEREALAKLRK 307
>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 = 105 bits (263), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 58/160 (36%), Positives = 92/160 (57%), Gaps = 12/160 (7%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
++ +P VT YN+ A +DP+ LLTA EE EL ++Q
Sbjct: 26 EIDRPTVTPSSAYNNWSA------------DDPVGALFKEMARYPLLTATEEVELARRVQ 73
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+L+ L++ + +LQ + R PT E A A+G+S L+ H S++ K+I++NLRLVV
Sbjct: 74 ELVALDEVEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQSAKRKMISSNLRLVVS 133
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+AK+Y RG+ DL+QEG++GL ++ EKF P+ G +F+
Sbjct: 134 IAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFST 173
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 45/179 (25%), Positives = 90/179 (50%), Gaps = 36/179 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341
++ L +L+K L+ R PT E A+ + ++C L+
Sbjct: 201 VEQLNKLKKVYRDLRRSLQRNPTETELAREMQVTCEQLR--------------------- 239
Query: 342 VHVAKQYQGRGISL-HDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
+Q + + +SL H + E S L+ +E + + P+ + + +MRQ
Sbjct: 240 --YLQQVRRQSLSLNHRIGSEESSELLDVLE-----------DNATQSPEAQMNEMMMRQ 286
Query: 401 HVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ +L ++L +E+ IV +R+G+ G+P +L EV ++F LS+ERVRQ++++A+ +L++
Sbjct: 287 DILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRR 345
>gi|87303408|ref|ZP_01086196.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
gi|87282056|gb|EAQ74018.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
Length = 330
Score = 105 bits (263), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 69/193 (35%), Positives = 108/193 (55%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT ++E L Q+Q+L+RLE+ + +L+ + G ++P+ EWA A GLS LK +L SG
Sbjct: 34 LLTHEQEITLGRQVQELMRLEETEQELEMRAGGQKPSAAEWASAAGLSPALLKRKLSSGR 93
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 94 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 153
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ L L +R E G+ +LSE+
Sbjct: 154 WIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQR-----ELSQELGRTPTLSELAVCVE 208
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 209 LPEEEVKDLLCRA 221
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 64/257 (24%), Positives = 105/257 (40%), Gaps = 56/257 (21%)
Query: 218 RRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG-------FDRNDPLR-------LF 260
RR+K+R V+ + V+ + Y R + + EG ++ DP R +
Sbjct: 93 RRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAY 152
Query: 261 LWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
W + TR + L I + L +L+K + +L + GR PTL E A + L
Sbjct: 153 WWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLSELAVCVELPEE 212
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ-EGSMGLMKSVEKFKPQ 376
++K L V K G L DLLQ +G++
Sbjct: 213 EVKDLLCRARQP-----------VSLETKVGDGEDTELLDLLQGDGTL------------ 249
Query: 377 AGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 436
P SV + +R +R LL L +R ++ +R+GI+ +P SL+ +
Sbjct: 250 ------------PAESVDSECLRGDMRALLEQLPELQRSVLSMRYGIDGDEPMSLTSIAR 297
Query: 437 IFGLSKERVRQLESRAL 453
G+S+++ R LE RAL
Sbjct: 298 TLGMSRDKTRNLERRAL 314
>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 = 105 bits (263), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 83/135 (61%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 142 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEW 201
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 202 AALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 261
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 262 AAEKFDHEKGYKFST 276
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 369 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 428
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 429 TRERIRQIEAKALRKLRH 446
>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 = 105 bits (263), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 81/130 (62%), Gaps = 1/130 (0%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL QI DL+ LE ++ GR PT EWA A +
Sbjct: 80 DSIRVYLQEIGRIRLLRAEEEIELARQIADLLDLEYIRATQIEHLGRIPTDEEWAIACDI 139
Query: 315 -SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 140 PNMRQFNRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 199
Query: 374 KPQAGCRFAN 383
+ G +F+
Sbjct: 200 DHEKGYKFST 209
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 302 FIEADGETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 361
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 362 TRERIRQIEAKALRKLRH 379
>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 = 105 bits (263), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 63/198 (31%), Positives = 109/198 (55%), Gaps = 5/198 (2%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q +++L + K +L + REPT +EWA +
Sbjct: 24 TDTVRTYLHEIGRVALLTREQEIIYGKQVQQMMQLLEAKEELAKELRREPTEVEWALQVQ 83
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +LK +H G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 84 LSEAELKRLMHQGRRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKF 143
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC----IVRLRFGIEDGKPK 429
P G +F+ ++ + + QH R + ++ E+ V+ + G+
Sbjct: 144 DPMRGYKFSTYAYWWIRQAITRAIA-QHARTIRLPIHITEKLNKIKKVQRELAQQLGRSP 202
Query: 430 SLSEVGNIFGLSKERVRQ 447
+ +E+G+ L ++R+
Sbjct: 203 TPAEIGSALELHPSQIRE 220
Score = 68.2 bits (165), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + +L+RQ + NL+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 254 PDDYITGELLRQDLNNLMAELTPQQRDVLSLRFGLEDGHEMSLAKVGERLKLSRERVRQL 313
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 314 EHQALAHLRR 323
>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 = 105 bits (263), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>gi|6463980|dbj|BAA86957.1| group 2 sigma factor RpoD3 [Synechococcus sp. PCC 7942]
Length = 320
Score = 105 bits (263), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 53/116 (45%), Positives = 79/116 (68%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A GLS +L+ + H G
Sbjct: 24 LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEELRQQQHLGE 83
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 84 QAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 139
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 44/62 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MR+ + LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L+
Sbjct: 249 MRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTLR 308
Query: 458 QS 459
Q+
Sbjct: 309 QA 310
>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 = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 53/134 (39%), Positives = 82/134 (61%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EWA
Sbjct: 120 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEWA 179
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 180 ALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 239
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 240 AEKFDHEKGYKFST 253
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 346 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 405
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 406 TRERIRQIEAKALRKLR 422
>gi|56750866|ref|YP_171567.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 6301]
gi|56685825|dbj|BAD79047.1| group2 RNA polymerase sigma factor RpoD3 [Synechococcus elongatus
PCC 6301]
Length = 326
Score = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 53/116 (45%), Positives = 79/116 (68%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A GLS +L+ + H G
Sbjct: 30 LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEELRQQQHLGE 89
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 90 QAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 145
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 84/175 (48%), Gaps = 34/175 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR TL E A A+ L+ ++ L ++ +LR+
Sbjct: 176 LNKIKKMQRQLSQQLGRTATLPELAAALDLTPAQVRDYLEKARHP----LSLDLRV---- 227
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L DLL+ + E+F QA MR+ +
Sbjct: 228 ---GDNQDTELGDLLETDCT----TPEEFTLQAS-------------------MRRDIDR 261
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L+Q+
Sbjct: 262 LLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTLRQA 316
>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 = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL +I DL+ LE+ + ++ + R P+ EWA+ + +
Sbjct: 62 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERMADRLERYPSDAEWAEEVNM 121
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 122 RLPEFRRRLFYGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 181
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 182 HEKGYKFST 190
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 283 FIEADGETPEDQVSKSLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 342
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 343 TRERIRQIEAKALRKLR 359
>gi|220907004|ref|YP_002482315.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7425]
gi|219863615|gb|ACL43954.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 327
Score = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E L Q+Q L+ L + + KL + R PT EWA+
Sbjct: 17 TDMVRTYLHEIGRVPLLTHEQEIVLGKQVQQLMELLEAREKLTTSLDRSPTAEEWAEQAN 76
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS DL + + G +++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF
Sbjct: 77 LSVADLNTAVRRGQRAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKF 136
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 137 DPTRGYKFST 146
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 47/70 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + +R V +LL L P++R ++ LRFG+EDGK SL++VG LS+ERVRQL
Sbjct: 247 PEQYTTGEALRDDVNHLLAELTPQQREVLTLRFGLEDGKELSLAKVGEQLSLSRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 ERQALDHLRR 316
>gi|81299483|ref|YP_399691.1| RNA polymerase sigma factor SigD [Synechococcus elongatus PCC 7942]
gi|123557285|sp|Q31QG5.1|RPOD3_SYNE7 RecName: Full=RNA polymerase sigma factor rpoD3
gi|81168364|gb|ABB56704.1| group2 RNA polymerase sigma factor SigD [Synechococcus elongatus
PCC 7942]
Length = 320
Score = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 53/116 (45%), Positives = 79/116 (68%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A GLS +L+ + H G
Sbjct: 24 LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLSIEELRQQQHLGE 83
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 84 QAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 139
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 84/175 (48%), Gaps = 34/175 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR TL E A A+ L+ ++ L ++ +LR+
Sbjct: 170 LNKIKKMQRQLSQQLGRTATLPELAAALDLTPAQVRDYLEKARHP----LSLDLRV---- 221
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L DLL+ + E+F QA MR+ +
Sbjct: 222 ---GDNQDTELGDLLETDC----TTPEEFTLQAS-------------------MRRDIDR 255
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L+Q+
Sbjct: 256 LLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTLRQA 310
>gi|427709357|ref|YP_007051734.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427361862|gb|AFY44584.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 332
Score = 105 bits (262), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 56/130 (43%), Positives = 76/130 (58%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L++ + L SQ GREPTL EWAK
Sbjct: 22 TDLVRTYLREIGRVPLLTHEEEIRYGKQVQRSTALQEVRESLASQLGREPTLEEWAKESK 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L DL + G ++ +++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 LDIADLNDAIADGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPTKGYRFST 151
Score = 55.8 bits (133), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 39/58 (67%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
L P++R ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L++S Y
Sbjct: 272 LTPQQREVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALNKLRKSKAAMNEY 329
>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 = 105 bits (261), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 60/137 (43%), Positives = 84/137 (61%), Gaps = 7/137 (5%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW-AKA- 311
D +RL+L LL DEE L ++QD ++L + +LQ + GR+PTL EW AKA
Sbjct: 45 TDLVRLYLQEIGRVPLLGRDEEVALAQKVQDYMKLLDLRLRLQKELGRDPTLAEWVAKAN 104
Query: 312 -----IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
L+ L+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 105 QYPEWAQLTPEKLQQIQRIGKRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGL 164
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P+ G RF+
Sbjct: 165 ERAVEKFDPKKGYRFST 181
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 55/77 (71%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DIS ++ +MR+ ++ LL+ L +ER ++R+RFG+ DG+ SL+E+G LS
Sbjct: 275 LETDDISPEETMMREALHRDLQQLLSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLS 334
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 335 RERVRQIEAKALQKLRQ 351
>gi|434387533|ref|YP_007098144.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
gi|428018523|gb|AFY94617.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
Length = 318
Score = 105 bits (261), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L+ L K+ L +FGREP+L EWA A
Sbjct: 8 TDTVRTYLREIGRVPLLTHEQEILYGKQVQQLVSLVAVKNTLMEEFGREPSLTEWATAAN 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ L+ + +G +++ +++ ANLRLVV VAK+Y R I L DL+QEG++G+ + VEKF
Sbjct: 68 IDELQLQKTISAGENAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPSKGYRFST 137
Score = 54.7 bits (130), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 92/184 (50%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + L QFGR T+ E A + LS + ++ L ++ +LR+
Sbjct: 166 EKLNKIKKAQRSLAQQFGRAATINELAAELELSSKQVREYLERARQP----LSLDLRV-- 219
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L DLL++ + S E++ + + S+Q L R
Sbjct: 220 -----GDNQDTELGDLLEDPGI----SPEEY--------------VTNSSLQVDLER--- 253
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
+++ L P+++ ++ LRFG++D +P +L+++G++ +S+ERVRQ+E A+ +L++
Sbjct: 254 --MMSELTPQQQQVLTLRFGLKDTQPLTLAKIGDLLNISRERVRQIEREAIAKLRKRKAD 311
Query: 463 KASY 466
Y
Sbjct: 312 IGEY 315
>gi|299472557|emb|CBN79859.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus
siliculosus]
Length = 835
Score = 105 bits (261), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 73/218 (33%), Positives = 120/218 (55%), Gaps = 2/218 (0%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
+PL ++ + KLL DEE L QIQ ++LE+ + +L++ G P+ EWA + L
Sbjct: 226 NPLNVYFKTLKKIKLLKPDEEVVLGRQIQRGLQLERVRDRLETTHGAAPSCEEWASTLHL 285
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L EL + ++E +I+ANLRLVV +A+ Y+GRG++ DL+QEG+MGL+K+ EKF
Sbjct: 286 TKDELLRELAVADEAKEHMISANLRLVVSMARGYRGRGLAFPDLIQEGTMGLVKACEKFN 345
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ-HVRNLLTLLNPKERCIVRLRFGIE-DGKPKSLS 432
P+ G +F S+ + Q V L T ++ I + + + DGK +
Sbjct: 346 PEMGFQFYTYARWWIKKSILTGIANQSRVIRLPTQVHAFLSSIRKYTYELTVDGKVPTDE 405
Query: 433 EVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
E+G+ G + E+++ AL SL +AS +D
Sbjct: 406 ELGDKLGATVEKIQHYRQAALRTDSISLDIRASNKVSD 443
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 48/81 (59%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + P+ + Q M+ V LL L +E+ +VR R+G++ K+L E+G
Sbjct: 450 GTQIGEKSTPDPEDATQAFYMKGKVTALLATLKDREQKVVRARYGLDGATSKTLEEIGRD 509
Query: 438 FGLSKERVRQLESRALYRLKQ 458
GL++ERVRQ+ES+AL +L+Q
Sbjct: 510 LGLTRERVRQIESKALSKLRQ 530
>gi|67922139|ref|ZP_00515654.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|67856039|gb|EAM51283.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
Length = 318
Score = 105 bits (261), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LL+ +EE ++Q LI LEK + ++ + G+EPT +WAKA L
Sbjct: 9 DPVRAYLKEIGRVPLLSHEEEILYAKRVQRLINLEKLREEIIQETGKEPTNSQWAKAAKL 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ S + +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SRKEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 129 PTKGYRFST 137
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 89/184 (48%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L Q GR T+ E A+ + L+ + ++ L SR+ L + +LR+
Sbjct: 166 EKLNKIKKAQRELSQQKGRAATISELAEELDLTPKQVRDYLER---SRQPL-SLDLRV-- 219
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L DLL++ +S E F + +F +
Sbjct: 220 -----GDNQDTELGDLLEDEG----QSPEDFATHSSLQF-------------------DL 251
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 252 EKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIEREALSKLRKRKAN 311
Query: 463 KASY 466
Y
Sbjct: 312 IQEY 315
>gi|452822634|gb|EME29651.1| RNA polymerase primary sigma factor [Galdieria sulphuraria]
Length = 601
Score = 105 bits (261), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 62/184 (33%), Positives = 99/184 (53%), Gaps = 6/184 (3%)
Query: 203 PLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLW 262
PLE+++ + ER ++K E+ +R +V K F + + FL
Sbjct: 205 PLEDIRHLEKQ---EREILSMAITKEDAMLIESIVNRPTTVSTK---QFKKGSSMGAFLK 258
Query: 263 GPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322
+ LL ++ L +I+ L + +L+ Q+GREP +EWAK++ +S +L
Sbjct: 259 EIGSVPLLNENQVISLAREIRKLALWNATRIQLRQQYGREPDRVEWAKSLNMSSEELTRN 318
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L +RE L+ ANLRLVV VAKQ+ RG+S+ DL+QEGS+GL+K E+F + G RF+
Sbjct: 319 LLRAQRARESLVAANLRLVVSVAKQFTNRGLSMQDLIQEGSIGLIKGAERFDYRRGFRFS 378
Query: 383 NTGV 386
+
Sbjct: 379 TYAM 382
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 96/190 (50%), Gaps = 20/190 (10%)
Query: 282 IQDL-IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS-ELHSGNSSREKLINANLR 339
I DL +++ + + +L S GR+PT E A + +S + L+ +L++ S A +
Sbjct: 406 ISDLSVQIYRARLELSSSLGRDPTDAELADCLDISVQRLQDVKLYTNQS-------ATVS 458
Query: 340 LVVHVAKQYQGRGI---SLHDLLQEGSMG---LMKSVEKFKPQAGCRFANTGVEI----- 388
L + Q R I D Q S G + K V +P+ G V+
Sbjct: 459 LDAPLGHQTTNRSIKAKGTGDTDQFASKGEGKISKGVYGSRPKLGDFTLGDTVQTDDSVS 518
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + LMR + L+LLNP ER ++R+RFG++DG+ KS+ EV + + R+R++
Sbjct: 519 PEHMMADSLMRDDIECALSLLNPYEREVIRMRFGLDDGRMKSIDEVCAYYCVQTSRIRRI 578
Query: 449 ESRALYRLKQ 458
E+RAL +L+
Sbjct: 579 EARALRKLRH 588
>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 = 105 bits (261), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 57/132 (43%), Positives = 79/132 (59%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
D D +R +L LLT ++E +++ L L++ K L Q GREPT EWA A
Sbjct: 6 DSTDLVRTYLKEIGRVPLLTHEQEISYGKKVKQLTTLKEVKESLVQQLGREPTFSEWATA 65
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
L+ LKS + G S++ K++ ANLRLVV VAK+Y R + L DL+QEG++GL + VE
Sbjct: 66 SCLTDSQLKSSIAVGESAKRKMVEANLRLVVAVAKKYIKRNLELLDLIQEGTIGLQRGVE 125
Query: 372 KFKPQAGCRFAN 383
KF P G RF+
Sbjct: 126 KFDPTKGYRFST 137
Score = 55.5 bits (132), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V + LM+ + + L P++R ++RLR+G+ + +P +L+++G +S+ERVRQ+
Sbjct: 238 PEDFVNQSLMQLDLEKFMDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASY 466
E A+ +L++ G Y
Sbjct: 298 EREAIAKLRKRQGDMREY 315
>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 = 105 bits (261), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 53/132 (40%), Positives = 84/132 (63%), Gaps = 3/132 (2%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG---REPTLIEWAKA 311
D +RL+L +LL ADEE EL +I DL++LE ++ +L Q + L +WA
Sbjct: 80 DSIRLYLQEIGRIRLLRADEEIELARKIADLLQLEDKQRELAEQHDCDLEDVNLEDWAVE 139
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+ + K+ LHSG +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ E
Sbjct: 140 MDMPLDKFKNRLHSGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 199
Query: 372 KFKPQAGCRFAN 383
KF + G +F+
Sbjct: 200 KFDHEKGYKFST 211
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E PD V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 304 FIESDGETPDDQVAKNLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 363
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLRH 381
>gi|56752354|ref|YP_173055.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus
PCC 6301]
gi|56687313|dbj|BAD80535.1| group2 RNA polymerase sigma factor RpoD2 [Synechococcus elongatus
PCC 6301]
Length = 320
Score = 105 bits (261), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 64/201 (31%), Positives = 108/201 (53%), Gaps = 13/201 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L +LLTA+EE Q+Q L+ L +++L+ + G EP+ EWA A+ L
Sbjct: 11 DLVRAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDL 70
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ DL ++ G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + EKF
Sbjct: 71 NLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGFEKFD 130
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G +F+ ++ + + +Q H+ L L +R + + + G
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQ-----QLG 185
Query: 427 KPKSLSEVGNIFGLSKERVRQ 447
+ + SE+ + L E+VR+
Sbjct: 186 RSATASELAEVLELPLEQVRE 206
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+++ +R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+L
Sbjct: 240 PSDYVEQESLRRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKL 299
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 300 ERQAMDHLRR 309
>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 = 105 bits (261), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 82/130 (63%), Gaps = 1/130 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L +LL DEE +L +I L+ E K L+ + REPT EW A
Sbjct: 112 DDSVRWYLQLIGRVRLLRPDEEIQLAREISQLLHWEHVKISLRDKLRREPTNSEWTAACK 171
Query: 314 LS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
+S R +S LH+ ++E+++ ANLRLVV +AK+Y RG+SL DL+QEGS+GL+++ EK
Sbjct: 172 VSDVRKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEK 231
Query: 373 FKPQAGCRFA 382
F + G +F+
Sbjct: 232 FDSEKGFKFS 241
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V+K ++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +
Sbjct: 336 FIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSV 395
Query: 441 SKERVRQLESRALYRLKQ 458
++ERVRQ+E++A+ +L+Q
Sbjct: 396 TRERVRQIEAKAIRKLRQ 413
>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 = 104 bits (260), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 53/115 (46%), Positives = 75/115 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E Q+Q +I L K L Q REPTL EWA+ + LS + L+ +L +G
Sbjct: 39 LLSHEQEIVFGKQVQQMIALVTAKENLAKQLQREPTLQEWAELMHLSDKALQKQLLAGQQ 98
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++K+I ANLRLVV VAK+YQ R + DL+QEG++GL + VEKF P G RF+
Sbjct: 99 AKQKMIEANLRLVVAVAKKYQKRNLDFLDLIQEGTLGLERGVEKFDPTRGFRFST 153
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 60/219 (27%), Positives = 101/219 (46%), Gaps = 48/219 (21%)
Query: 247 LSEGFDRNDPLRLF------LWGPE---TRKLLTADEEFEL-IAQIQDLIRLEKEKSKLQ 296
L G ++ DP R F W TR + L I + L ++++ + +L
Sbjct: 136 LERGVEKFDPTRGFRFSTYAYWWIRQGVTRAIAQQSRTIRLPIHMTEKLNKIKRTQRELS 195
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN--LRLVVHVAKQYQGRGIS 354
+ GR PT IE A+AI DL+ E RE L+ A + L + + +
Sbjct: 196 QKLGRTPTSIEIAEAI-----DLQPE-----QVRECLLLARHPISLEARIGDE---QDTE 242
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 414
L ++LQ+ + +P+ ++ +R+ V+N+L+ L ++R
Sbjct: 243 LQNILQDDGL-----------------------LPESYAVRESIRESVQNILSKLPTQQR 279
Query: 415 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
I+ LRFG+ DG SL+++G G+S+ERVRQLE +A
Sbjct: 280 EILTLRFGLADGNELSLAQIGQRMGISRERVRQLEQQAF 318
>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 = 104 bits (260), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 82/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE Q+Q LI LEK K L+ + G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEILYAKQVQRLIFLEKIKESLKVKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASY 466
+S+ERVRQ+E A+ +L++ G Y
Sbjct: 287 LNISRERVRQIEREAIAKLRKRKGNIREY 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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLETKEALSKQLGREPDRLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>gi|428320222|ref|YP_007118104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
gi|428243902|gb|AFZ09688.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillatoria
nigro-viridis PCC 7112]
Length = 357
Score = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 58/157 (36%), Positives = 90/157 (57%), Gaps = 12/157 (7%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P VT YN+ A +DP+ LLTA EE EL ++Q+L+
Sbjct: 29 RPTVTRSSAYNNWSA------------DDPVGALFKEMARYPLLTAAEEVELARRVQELV 76
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
L++ + +LQ + R PT E A A+G+S L+ H S++ K+I++NLRLVV +AK
Sbjct: 77 ALDELEQRLQQELDRVPTKAELAAALGISETQLQQLRHQCQSAKRKMISSNLRLVVSIAK 136
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+Y RG+ DL+QEG++GL ++ EKF P+ G +F+
Sbjct: 137 RYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFST 173
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 48/179 (26%), Positives = 91/179 (50%), Gaps = 36/179 (20%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341
++ L +L+K L+ R PT E A+ + +SC +LR +
Sbjct: 201 VEQLNKLKKVYRDLKRSLQRNPTETELAREMEVSCE-------------------HLRYL 241
Query: 342 VHVAKQYQGRGISL-HDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
V +Q +SL H + E S L+ +E + + P+ + + +MRQ
Sbjct: 242 QQVRRQ----SLSLNHRIGSEESSELLDVLE-----------DNATQSPEAQMNEMMMRQ 286
Query: 401 HVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ +L ++L +E+ IV +R+G+ G+P +L EV ++F LS+ERVRQ++++A+ +L++
Sbjct: 287 DILEVLDSILTEREKEIVAMRYGLLTGEPYTLEEVSSLFNLSRERVRQIQNKAMRKLRR 345
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQRLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL QI DL+ LE+ + +L Q R P+ EWA A+
Sbjct: 89 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 148
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 208
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 209 HEKGYKFST 217
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +
Sbjct: 310 FIEADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNV 369
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 370 TRERIRQIEAKALRKLR 386
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL QI DL+ LE+ + +L Q R P+ EWA A+
Sbjct: 89 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 148
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 208
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 209 HEKGYKFST 217
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +
Sbjct: 310 FIEADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNV 369
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 370 TRERIRQIEAKALRKLR 386
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQRLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 104 bits (260), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>gi|416388961|ref|ZP_11685251.1| Cyanobacteria-specific RpoD-like sigma factor, type-2 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
gi|357264325|gb|EHJ13231.1| Cyanobacteria-specific RpoD-like sigma factor, type-2 @ Group 2 RNA
polymerase sigma factor [Crocosphaera watsonii WH 0003]
Length = 318
Score = 104 bits (260), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R +L LL+ +EE ++Q L+ LEK + ++ + G+EPT +WAKA L
Sbjct: 9 DPVRAYLKEIGRVPLLSHEEEILYAKRVQRLVNLEKLREEIIQETGKEPTNSQWAKAAKL 68
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ S + +G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 SRKEFCSVVEAGEAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFD 128
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 129 PTKGYRFST 137
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 89/184 (48%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L Q GR T+ E A+ + L+ + ++ L SR+ L + +LR+
Sbjct: 166 EKLNKIKKAQRELSQQKGRAATISELAEELDLTPKQVRDYLER---SRQPL-SLDLRV-- 219
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L DLL++ +S E F + +F +
Sbjct: 220 -----GDNQDTELGDLLEDEG----QSPEDFATHSSLQF-------------------DL 251
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 252 EKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIEREALSKLRKRKAN 311
Query: 463 KASY 466
Y
Sbjct: 312 IQEY 315
>gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942]
Length = 384
Score = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL ADEE EL QI DL+ LE+ + +L Q R P+ EWA A+
Sbjct: 74 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 133
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 134 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 193
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 194 HEKGYKFST 202
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +
Sbjct: 295 FIEADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNV 354
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 355 TRERIRQIEAKALRKLR 371
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q ++ L + + + GREP+L EWA+
Sbjct: 17 TDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREPSLEEWAEKAN 76
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G +++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF
Sbjct: 77 LSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKF 136
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 137 DPTRGYKFST 146
Score = 58.2 bits (139), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 44/69 (63%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R V LL L P++R ++ LRFG+ +GK SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLR 315
Query: 458 QSLGGKASY 466
+ G Y
Sbjct: 316 RRKGEVREY 324
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPQHLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>gi|158337052|ref|YP_001518227.1| RNA polymerase sigma factor SigD [Acaryochloris marina MBIC11017]
gi|158307293|gb|ABW28910.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 74/115 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q LI+L+ + +L Q R+P EW+ A LS +L+ LH G +
Sbjct: 23 LLTHEEEVTFGKQVQHLIKLQTIRDELAEQLERQPNDAEWSAAAKLSEAELQKALHEGEA 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137
Score = 54.3 bits (129), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 45/182 (24%), Positives = 87/182 (47%), Gaps = 34/182 (18%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L + GR T+ E A ++ L+ + ++ L L L V V
Sbjct: 168 LNKIKKTQRQLSQKLGRAATISELATSLDLTTKQVREYLERARQP--------LSLDVRV 219
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L +L+++ S +S E F QA +R +
Sbjct: 220 G---DNQDTELGELIEDPS----ESPENFTLQAS-------------------LRGDLER 253
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L +++ ++ LRFG++DG+P +L+++G+ +S+ERVRQ+E AL +L++ +
Sbjct: 254 LMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKLRKRKADIS 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>gi|33863339|ref|NP_894899.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
gi|33640788|emb|CAE21243.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9313]
Length = 320
Score = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 67/192 (34%), Positives = 109/192 (56%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+L+ LE+ +S+L+ Q G + E AKA GLS LK +L SG
Sbjct: 25 LLSHEQEITLGRQVQELMSLEQLESELEGQTGEPASRKELAKAAGLSELQLKKKLQSGRR 84
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R + + E G+ ++SE+ L
Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----EMGRTPTVSELAEFVEL 199
Query: 441 SKERVRQLESRA 452
+E V+ L RA
Sbjct: 200 PEEEVKDLMCRA 211
Score = 45.4 bits (106), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+ M+ +R LL L + ++R+R+GI+ G+P +L+ + G+S++R R+L
Sbjct: 240 PSEKVEVDCMKGDLRTLLEKLPELQGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRL 299
Query: 449 ESRALYRLKQS 459
E L ++ S
Sbjct: 300 EREGLALMRTS 310
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAHSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL+ +EE Q+Q L++ + +L +Q GREP++ EWAKA
Sbjct: 22 TDLVRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEVREELATQLGREPSIEEWAKAAN 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ DL + G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 INSADLLGAIADGEVAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPTKGYRFST 151
Score = 55.8 bits (133), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 51/85 (60%), Gaps = 4/85 (4%)
Query: 386 VEIPDISVQKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E P S + +M+ + N L+ L P+++ ++ LRFG+ DG+ +L+ +G I +S
Sbjct: 245 LEDPGASPEDFVMQSSLSNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNIS 304
Query: 442 KERVRQLESRALYRLKQSLGGKASY 466
+ERVRQ+E AL +L++S Y
Sbjct: 305 RERVRQIEREALTKLRKSKANMGEY 329
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEGLSKQLGREPQQLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVISLRFGLSDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.8 bits (120), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 41/55 (74%)
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L++
Sbjct: 253 KLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLRK 307
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP +EWA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEGLSKQLGREPQQLEWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 56/150 (37%), Positives = 89/150 (59%), Gaps = 9/150 (6%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R+A+ KKK D +RL+L +LL ADEE EL +I DL+ LE+ + ++ Q
Sbjct: 55 RRATAKKK----HYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERIRDRISEQ 110
Query: 299 FGREPTLIE-----WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+P +E WA + ++ + L G ++EK++ +NLRLVV +AK+Y RG+
Sbjct: 111 LDCDPDDLERHPEPWASEVKMTLPAFRHRLFVGRRAKEKMVQSNLRLVVSIAKKYMNRGL 170
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 171 SFQDLIQEGSLGLIRAAEKFDHEKGYKFST 200
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G IF +
Sbjct: 293 FIESDGETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 352
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 353 TRERIRQIEAKALRKLRH 370
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 50.8 bits (120), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAYSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>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 = 104 bits (259), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 8 TDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D + L + + L+ L P+++ ++ LRFG+++G+P +L+++G
Sbjct: 228 GELLEDTGLSPEDYTAHSSL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E A+ +L++
Sbjct: 287 LNISRERVRQIEREAIAKLRK 307
>gi|2564653|gb|AAC45358.1| group 2 alternative sigma factor [Nostoc punctiforme PCC 73102]
Length = 321
Score = 103 bits (258), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 59/146 (40%), Positives = 85/146 (58%), Gaps = 5/146 (3%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T++ KAS K + D +R +L LLT ++E ++Q L+ + E K
Sbjct: 5 TFSDTKASNTNKAT-----TDTVRAYLKEIGRIPLLTQEQEIIFAQEVQQLMTILAESEK 59
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L + R PTL EWA + LS ++L +L+ G ++ K+I ANLRLVV +AKQYQ R +
Sbjct: 60 LTIELKRTPTLSEWANQMQLSEQELLQQLNQGKKAKHKMITANLRLVVSIAKQYQRRNLE 119
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCR 380
L DL+QEG++GL + VEKF P G R
Sbjct: 120 LMDLIQEGTLGLERGVEKFNPALGYR 145
Score = 47.8 bits (112), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 37/52 (71%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ Q V +LL+ L+ +++ I+ L FG+ DG+ SL ++G G+S+ERVRQ+E
Sbjct: 258 LNQEVNSLLSNLSRQQQEILNLHFGLTDGEELSLQQIGQRLGISRERVRQIE 309
>gi|300868245|ref|ZP_07112876.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506]
gi|300333769|emb|CBN58060.1| RNA polymerase sigma factor SigD [Oscillatoria sp. PCC 6506]
Length = 319
Score = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L + K+ L + GR+PT EWA+A G
Sbjct: 9 TDSVRAYLREIGRVPLLTHEQEILYGKQVQRTTALHEAKNALALELGRDPTRTEWAEAAG 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L+ +H+G ++ ++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 LSETELQRTIHAGERAKRMMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 128
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 129 DPTKGYRFST 138
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D ++Q L R + L+ L ++R ++ LRFG+EDG+ +LS++G+
Sbjct: 229 GDLLEDTGASPEDFALQASL-RADLEMLMADLTQQQREVLALRFGLEDGQTLTLSKIGDR 287
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E AL +L++
Sbjct: 288 LNISRERVRQIEREALTKLRK 308
>gi|33862400|ref|NP_893960.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
gi|33640513|emb|CAE20302.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9313]
Length = 335
Score = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 67/192 (34%), Positives = 107/192 (55%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+L+ LE+ +S+L+ Q G + E AKA GLS LK +L SG
Sbjct: 40 LLSHEQEITLGRQVQELMSLEQLESELEGQTGEPASRKELAKAAGLSELQLKKKLQSGRR 99
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 100 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R E G+ ++SE+ L
Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQEMGRTPTVSELAEFVEL 214
Query: 441 SKERVRQLESRA 452
+E V+ L RA
Sbjct: 215 PEEEVKDLMCRA 226
Score = 49.7 bits (117), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+ M+ +R LL L + ++R+R+GI+ G+P +L+ +G I +S++RVR L
Sbjct: 255 PSEKVEVDCMKGDLRTLLEKLPELQGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNL 314
Query: 449 ESRALYRLKQ 458
E L L+Q
Sbjct: 315 ERHGLNGLRQ 324
>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 = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L +EK+ L + GR+PT EWA+A+G
Sbjct: 9 TDSVRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKNILAEELGRDPTAAEWAQAVG 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ + G ++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 LSEAQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 128
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 129 DPTKGYRFST 138
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D ++Q L R + L+ L ++R ++ LRFG+EDG+ +L+++G+
Sbjct: 229 GDLLEDTGTTPEDFALQSSL-RTDLDQLMAELTQQQREVLALRFGLEDGQTLTLAKIGDR 287
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E AL +L++
Sbjct: 288 LNISRERVRQIEREALTKLRK 308
>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 = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 82/135 (60%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S G+ P EW
Sbjct: 127 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEW 186
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 187 AALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 246
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 247 AAEKFDHEKGYKFST 261
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 354 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 413
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 414 TRERIRQIEAKALRKLRH 431
>gi|428217032|ref|YP_007101497.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudanabaena sp.
PCC 7367]
gi|427988814|gb|AFY69069.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena sp.
PCC 7367]
Length = 346
Score = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 66/206 (32%), Positives = 108/206 (52%), Gaps = 13/206 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT++EE ++Q L+RL + L Q R+PT EWA GL
Sbjct: 37 DMVRTYLHEIGKIPLLTSEEEIIFGKRVQQLMRLSELYEDLAEQLDRQPTQAEWADKAGL 96
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L+ + G S+ K+I ANLRLVV VAK+YQ R + L DL+QEG++GL ++V+KF
Sbjct: 97 NIEELEQIVRDGTRSKRKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERAVDKFD 156
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDG 426
P G +F+ ++ + + +Q H+ L + +R + + G
Sbjct: 157 PTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPVHITEKLNKIKKAQRQLSQ-----SLG 211
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRA 452
+ + +E+ + L E+VR+ S A
Sbjct: 212 RVATAAEIADALKLKPEQVREFLSMA 237
Score = 52.4 bits (124), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 42/69 (60%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + LL L PK+R ++ +R+G+EDGK SL+ + LS+E+VRQLE +A+ L+
Sbjct: 275 LRDDIAGLLLDLTPKQREVMIMRYGLEDGKEMSLASISKRMELSREQVRQLERQAMDSLR 334
Query: 458 QSLGGKASY 466
+ Y
Sbjct: 335 KRKAAIQEY 343
>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 = 103 bits (258), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 82/135 (60%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S G+ P EW
Sbjct: 131 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEW 190
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 191 AALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 250
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 251 AAEKFDHEKGYKFST 265
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 358 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 417
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 418 TRERIRQIEAKALRKLR 434
>gi|428213655|ref|YP_007086799.1| sigma-70 family RNA polymerase sigma factor [Oscillatoria acuminata
PCC 6304]
gi|428002036|gb|AFY82879.1| RNA polymerase sigma factor, sigma-70 family [Oscillatoria
acuminata PCC 6304]
Length = 619
Score = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 65/166 (39%), Positives = 92/166 (55%), Gaps = 17/166 (10%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ++E L Q+Q I+LE+ K L S+ REPT EWA A GLS L+ + G
Sbjct: 198 LLKREDEISLAQQVQRWIQLEQGKQSLNSKLHREPTRSEWANATGLSLSQLEDAISKGRK 257
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+++ L+ +NLRLVV +AK YQ RG+ L DL+Q G+ GL+K+ EKF P G +F+
Sbjct: 258 AQKSLVYSNLRLVVSIAKIYQHRGLELLDLIQHGNEGLIKATEKFDPIKGYKFSTYAT-- 315
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 434
+RQH+ L E I+RL I++ SLS+V
Sbjct: 316 -------HWIRQHITRGLC----NESRIIRLPVHIQE----SLSKV 346
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 47/66 (71%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+++Q MR+ + L+ L P+E+ ++ LRFG++ ++L ++G+ +GL++ER+RQ++ +
Sbjct: 415 CLEQQWMREEIDKALSTLKPREQEVLTLRFGLDGQGERTLEKIGDYYGLTRERIRQVQDK 474
Query: 452 ALYRLK 457
AL + K
Sbjct: 475 ALRKFK 480
>gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101]
Length = 464
Score = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 81/134 (60%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ ++ G P EWA
Sbjct: 149 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELAAQFETDHGHYPDTKEWA 208
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 209 ALVDMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 268
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 269 AEKFDHEKGYKFST 282
Score = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 375 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 434
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 435 TRERIRQIEAKALRKLRH 452
>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 = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 73/115 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL IQ L +E+ +++ + + GR P E A A+GL+ R L+ LH
Sbjct: 67 LLKPDEEVELARHIQQLNEIEELRAQFEEEHGRRPNKAELADALGLTERQLEQRLHRSQV 126
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 127 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFST 181
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 57/81 (70%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + +++MRQ + +L+ +L +E+ IV LR+GIE G+ +L EVGNIF LS+ERVRQ
Sbjct: 283 PEAQMSERMMRQEIAEVLSEVLTEREKEIVCLRYGIETGETHTLEEVGNIFNLSRERVRQ 342
Query: 448 LESRALYRLKQSLGGKASYGY 468
+++RA+ +L++ + G+
Sbjct: 343 IQTRAMRKLRRPQVARRLQGW 363
>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 = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 78/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L +EK L + GR+PT EWA+A+G
Sbjct: 9 TDSVRAYLREIGRVPLLTHEQEILYGKQVQRSTALHQEKDILAEELGRDPTAAEWAQAVG 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ + G ++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 LSEAQLQRTIEQGERAKRQMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 128
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 129 DPTKGYRFST 138
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 52/81 (64%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D ++Q L R + +L+ L ++R ++ LRFG+EDG+ +L+++G+
Sbjct: 229 GDLLEDTGTTPEDFALQSSL-RTDLDHLMAELTQQQREVLALRFGLEDGQTLTLAKIGDR 287
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E AL +L++
Sbjct: 288 LNISRERVRQIEREALTKLRK 308
>gi|186683480|ref|YP_001866676.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC
73102]
gi|186465932|gb|ACC81733.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 332
Score = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/131 (40%), Positives = 77/131 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K KL Q R+PT EW + I +
Sbjct: 23 DTVRAYLREIGRIPLLTHEQEINFAKQVQKMMALLATKEKLAIQLKRQPTQKEWIENINI 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L +LH G +++K+I ANLRLVV +AK+YQ + DL+QEGS+GL + VEKF
Sbjct: 83 GEKSLLQQLHQGQKAKQKMIQANLRLVVSIAKKYQRHNLDFLDLIQEGSLGLERGVEKFD 142
Query: 375 PQAGCRFANTG 385
P G +F+ G
Sbjct: 143 PTKGYKFSTYG 153
Score = 68.2 bits (165), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 53/78 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P++ + ++Q+++NLL+ LNP++R I+ RFG+ DG SL+E+G G+S+ERVRQ+
Sbjct: 252 PELYADHKFLQQNIQNLLSKLNPQQRQILTFRFGLTDGNELSLAEIGQRMGISRERVRQI 311
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ SY
Sbjct: 312 EQQALGSLRRHKDKIHSY 329
>gi|162458688|ref|NP_001104923.1| sigma factor SIG2A [Zea mays]
gi|4336606|gb|AAD17854.1| sigma factor SIG2A [Zea mays]
Length = 539
Score = 103 bits (257), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 47/123 (38%), Positives = 77/123 (62%)
Query: 261 LWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
LW R+LLTA EE E IQDL++LE +++L G +PT +WA A G+ + L+
Sbjct: 230 LWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELIEYNGGQPTFSQWATAAGVDEKTLR 289
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
L+ G + +++ +N+RLV+ +A++++G G+ +DL+QEG GL++ EKF G R
Sbjct: 290 KRLNYGIYCKNRMVTSNVRLVISIAREFEGPGMDFYDLIQEGMQGLIRGAEKFDSSKGFR 349
Query: 381 FAN 383
F+
Sbjct: 350 FST 352
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 53/87 (60%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ E + + + M++ V L L +E+ +V LRFG+EDG+ ++L E+GNI G+S
Sbjct: 446 ADPSAETAEEMLNRMSMKKDVHMALDTLTTREKQVVVLRFGLEDGRIRTLQEIGNIMGVS 505
Query: 442 KERVRQLESRALYRLKQSLGGKASYGY 468
+ER+RQ+ES A +L+ KA Y
Sbjct: 506 RERIRQIESGAFRKLRSKKKVKALKDY 532
>gi|413920797|gb|AFW60729.1| sigma factor SIG2A [Zea mays]
Length = 539
Score = 103 bits (256), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 47/123 (38%), Positives = 77/123 (62%)
Query: 261 LWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
LW R+LLTA EE E IQDL++LE +++L G +PT +WA A G+ + L+
Sbjct: 230 LWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELIEYNGGQPTFSQWATAAGVDEKTLR 289
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
L+ G + +++ +N+RLV+ +A++++G G+ +DL+QEG GL++ EKF G R
Sbjct: 290 KRLNYGIYCKNRMVTSNVRLVISIAREFEGPGMDFYDLIQEGMQGLIRGAEKFDSSKGFR 349
Query: 381 FAN 383
F+
Sbjct: 350 FST 352
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 33/87 (37%), Positives = 53/87 (60%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ E + + + M++ V L L +E+ +V LRFG+EDG+ ++L E+GNI G+S
Sbjct: 446 ADPSAETAEEMLNRMSMKKDVHMALDTLTTREKQVVVLRFGLEDGRIRTLQEIGNIMGVS 505
Query: 442 KERVRQLESRALYRLKQSLGGKASYGY 468
+ER+RQ+ES A +L+ KA Y
Sbjct: 506 RERIRQIESGAFRKLRSKKKVKALKDY 532
>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 = 103 bits (256), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 83/130 (63%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L LLT ++E Q+Q + L+ ++KL++ REP+ +EWA+A G
Sbjct: 8 SDLVRTYLKEIGRVPLLTHEQEVVYGKQVQRFVALQAYRTKLEASLEREPSKLEWAEAAG 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S +L + +G+ ++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISVDELTQAMDAGDLAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPLKGYRFST 137
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 54/222 (24%), Positives = 107/222 (48%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
+ G ++ DPL+ + W + TR + L I + L +++K + +L
Sbjct: 120 MQRGVEKFDPLKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR T+ E A+ + L+ + ++ L S ++ +LR+ + +L
Sbjct: 180 QKLGRAATVAELAEEVKLTPKQVRDYLEKSRSP----LSLDLRI-------GDNQDTNLG 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ +S E + Q+ L+R+ + L+ L P+++ +
Sbjct: 229 DLLEDPG----QSPEDYATQS-------------------LLRKDLDRLMAELTPQQQRV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LRFG++DGK +L+++G + +S+ERVRQ+E AL RL++
Sbjct: 266 LHLRFGLDDGKNMTLAKIGEMLSISRERVRQIEREALTRLRK 307
>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 = 103 bits (256), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q GREP ++WA ++ L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIIYGKQVQRMMSLLEAKEALSKQLGREPDRLDWADSVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L +G+ ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SENELDRALKTGDRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
++GV PD + ++L+RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+
Sbjct: 242 DSGVS-PDTFITQELLRQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISR 300
Query: 443 ERVRQLESRALYRLKQSLGGKASYGYA 469
ERVRQLE +AL L++ Y A
Sbjct: 301 ERVRQLEHQALAHLRRRRANVKEYIVA 327
>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 = 103 bits (256), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 82/135 (60%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S G+ P EW
Sbjct: 134 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPDTKEW 193
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 194 AALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 253
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 254 AAEKFDHEKGYKFST 268
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 361 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 420
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 421 TRERIRQIEAKALRKLRH 438
>gi|318040801|ref|ZP_07972757.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CB0101]
Length = 381
Score = 103 bits (256), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 79/244 (32%), Positives = 116/244 (47%), Gaps = 57/244 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ--------------------DLIRLEKEKS 293
D +RL+L LL+ +EE L Q+Q +LI LE ++
Sbjct: 19 TDLVRLYLQDIGRVDLLSHEEELTLARQVQRRERLLRERRRLAATHPALQELIDLEDDQQ 78
Query: 294 KLQSQFGREPTLIE----------------------WAKAIGLSCRDLKSELHSGNSSRE 331
+L SQ G P + + WA+ LS +LK LH G +R+
Sbjct: 79 RLASQLGHWPAVQQLAEQQRCTVSELREQIRQKQQAWAEHSNLSVAELKQALHHGRRARD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
G+ I+ Q + +R HV L + +R I E G+ S+S++ GLS+
Sbjct: 199 GI-TRAIATQSRTIRLPVHVTEKLNRIKKAQRQI-----ATEHGRLASVSDLARELGLSE 252
Query: 443 ERVR 446
E VR
Sbjct: 253 EVVR 256
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ + + +LL L +E ++RLR+G+ED P++LS++G LS+ERVRQ+
Sbjct: 291 PEQELTRESLHDDLESLLEELTAREAAVIRLRYGLEDDTPQTLSQIGEDLHLSRERVRQI 350
Query: 449 ESRALYRLKQ 458
ESRAL +L+Q
Sbjct: 351 ESRALLKLRQ 360
>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 = 103 bits (256), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 54/143 (37%), Positives = 85/143 (59%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ L ++K +L + G
Sbjct: 4 ANVNTKTKQPMYSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQTMMNLLEKKEELAQRVG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+EP++ EWAK + + + L+ L G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 KEPSIQEWAKEVNIEEKALQKALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/78 (44%), Positives = 55/78 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PDI + ++L+RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ G Y
Sbjct: 307 EHQALAQLRRRRGNVKEY 324
>gi|254409611|ref|ZP_05023392.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196183608|gb|EDX78591.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 374
Score = 103 bits (256), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 48/114 (42%), Positives = 76/114 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL +EE EL Q+Q L+ +++ +L + GR+PT E A+A+ L+ R ++ L+ G
Sbjct: 76 LLKPEEEIELATQVQFLVEMDEMTERLHQELGRKPTNAELAQALDLTERQFENRLYRGQI 135
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
S+ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 136 SKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPAKGYKFS 189
Score = 58.2 bits (139), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 58/87 (66%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+ + +P+ + + +MRQ + ++L+ +L +E+ ++ LR+G+ + +L EVG++F LS
Sbjct: 286 DNDLHLPEQQMSESMMRQEISDVLSDVLTEREKDVISLRYGLATPESYTLEEVGSMFNLS 345
Query: 442 KERVRQLESRALYRLKQSLGGKASYGY 468
+ERVRQ++S+A+ +L++ + G+
Sbjct: 346 RERVRQIQSKAMRKLRRPQVARRLQGW 372
>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 = 102 bits (255), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 109/207 (52%), Gaps = 13/207 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE L ++Q + L++ K L REP EWA+A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEIVLAKRVQRSMALQEIKDTLTKNLSREPLEHEWAEAAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S +L+ + +G +++EK++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ISEEELRRTMAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIED 425
P G RF+ ++ + + + H+ L + +R + + +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQ-----KQ 182
Query: 426 GKPKSLSEVGNIFGLSKERVRQLESRA 452
G+ ++SE+ L+ +VR+ RA
Sbjct: 183 GRAATISELAQELELTPRQVREYLERA 209
Score = 53.9 bits (128), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 51/89 (57%), Gaps = 1/89 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D + L + + L++ L P++R ++ LRFG+ DG+P +L+++G
Sbjct: 228 GELLEDTGTSPEDYATHSSL-QLDLEKLMSDLTPQQREVLALRFGLVDGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASY 466
+S+ERVRQ+E AL +L++ Y
Sbjct: 287 LNISRERVRQIEREALSKLRKRKANIKEY 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 = 102 bits (255), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 53/128 (41%), Positives = 79/128 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L ++K +L S+ G EP+L EWA + L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMTLLEKKEELASKLGHEPSLTEWANYVQL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+L + GN ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 GEDELNRAIAQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PTKGYKFS 145
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 52/70 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++L+RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDNYITQELLRQDLNNLMAELTPQQREVLSLRFGLEDGKELSLAKIGQRLNISRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL +L++
Sbjct: 307 EHQALAQLRR 316
>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 = 102 bits (255), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 74/115 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE L Q+Q L LEK + L + R PT EWA A+ LS L + + +G++
Sbjct: 22 LLTHEEEIVLGKQVQHLSLLEKRREALTEELDRTPTQAEWAAAVNLSEGQLLTIVRAGDT 81
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 82 AKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 136
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 91/183 (49%), Gaps = 36/183 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q+GR T++E A + L+ + ++ L ++ +LR+
Sbjct: 167 LNKIKKAQRQLSQQYGRAATVMELAAELELTPKQVRDYLEKARQP----LSLDLRV---- 218
Query: 345 AKQYQGRGISLHDLLQ-EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVR 403
+ L +LL+ EG S E+F QA +R+ +
Sbjct: 219 ---GDNQDTELSELLEDEGP-----SPEEFATQAA-------------------LRRDLD 251
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGK 463
L+ L P+++ ++RLRFG+ DG+ +L+++G + +S+ERVRQ+E AL +L++ G
Sbjct: 252 RLMGDLTPQQQQVLRLRFGLTDGQTLTLAKIGEMLSISRERVRQIEREALTKLRKRRGDM 311
Query: 464 ASY 466
Y
Sbjct: 312 QEY 314
>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 = 102 bits (255), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 82/135 (60%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL++LE+ ++ ++ G P EW
Sbjct: 187 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELAAQFEADHGHYPDNKEW 246
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 247 AALVDMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 306
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 307 AAEKFDHEKGYKFST 321
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 414 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 473
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 474 TRERIRQIEAKALRKLRH 491
>gi|428314272|ref|YP_007125249.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
gi|428255884|gb|AFZ21843.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
Length = 319
Score = 102 bits (255), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 52/115 (45%), Positives = 73/115 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L L+ K L + G EPTL EWA A LS +L S +++G
Sbjct: 23 LLTHEQEILYGKQVQRLTALQDMKESLWQELGHEPTLEEWATAAELSPSELNSHINAGEI 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137
Score = 58.2 bits (139), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V M+ + L+ L ++R ++ LRFG+EDG+P +L+++G+ +S+ERVRQ+
Sbjct: 238 PEDFVTHSAMQVDLEKLMADLTAQQREVLALRFGLEDGQPMTLAKIGDRLNISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L++ G Y
Sbjct: 298 EREALSKLRKRKGDIREY 315
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++++++L Q G EPT +WA+ +
Sbjct: 21 TDSVRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVN 80
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 81 LSVAQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 140
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 141 DPTKGYRFST 150
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 260 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 458 Q 458
+
Sbjct: 320 K 320
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++++++L Q G EPT +WA+ +
Sbjct: 21 TDSVRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVN 80
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 81 LSVAQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 140
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 141 DPTKGYRFST 150
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 260 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 458 Q 458
+
Sbjct: 320 K 320
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++++++L Q G EPT +WA+ +
Sbjct: 9 TDSVRAYLREIGRVPLLTHEQEILYGKQVQQATLLQEKRNELAKQLGYEPTEAQWAELVN 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 69 LSVAQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 128
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 129 DPTKGYRFST 138
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 307
Query: 458 Q 458
+
Sbjct: 308 K 308
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 51/134 (38%), Positives = 81/134 (60%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ ++ +S G+ P EWA
Sbjct: 125 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPETKEWA 184
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 185 ALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 244
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 245 AEKFDHEKGYKFST 258
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 351 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 410
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 411 TRERIRQIEAKALRKLRH 428
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 50/133 (37%), Positives = 84/133 (63%), Gaps = 4/133 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG----REPTLIEWAK 310
D +RL+L +LL ADEE EL +I DL+ LE+++ +L ++ G E + +WA
Sbjct: 98 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELEQQREELANEMGLDDPEEVSDSDWAV 157
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ + + L+ G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 158 KVDMPLPRFRRRLYEGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA 217
Query: 371 EKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 218 EKFDHEKGYKFST 230
Score = 81.3 bits (199), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E PD V K L+R+ + N+L L+P+ER +++LR+G++DG+ K+L E+G IF +
Sbjct: 323 FIESDGETPDDQVAKNLLREDLENVLGTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 382
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 383 TRERIRQIEAKALRKLRH 400
>gi|218440063|ref|YP_002378392.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218172791|gb|ACK71524.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 372
Score = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 78/115 (67%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL +EE EL ++ L+ E+++ +LQ R PT +EWA+A+GL R L++ L+ G
Sbjct: 73 LLKPEEEIELAYTVKFLMESEEKRQQLQIDLQRPPTKLEWAQAMGLQNERQLENRLYRGR 132
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
S++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 133 SAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 187
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 54/74 (72%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + +MRQ + +LT +L +E+ ++ LR+G+ +P +L EVG IF LS+ER
Sbjct: 287 LQLPEEKMNEAMMRQDISAVLTDVLTEREKDVIALRYGLSTSQPYTLEEVGGIFNLSRER 346
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 347 VRQIQSKAMRKLRR 360
>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 = 102 bits (254), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 51/134 (38%), Positives = 81/134 (60%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ + +S+ G P+ EWA
Sbjct: 110 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLNLEEIAIQFESENGHYPSKKEWA 169
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 170 ALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 229
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 230 AEKFDHEKGYKFST 243
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P++ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 336 FIESDSENPELDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 395
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 396 TRERIRQIEAKALRKLRH 413
>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 = 102 bits (254), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 52/115 (45%), Positives = 71/115 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q L + + L +Q GR+PTL EWAKA L +L + G
Sbjct: 37 LLTHEEEIFYGKQVQRSCTLHESRESLATQLGRQPTLEEWAKATKLEPVELNEAIADGEI 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF+
Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 151
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 42/62 (67%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L P++R ++ LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L++S
Sbjct: 268 LMGDLTPQQREVITLRFGLTDGQALTLAKIGEILNISRERVRQIEREALTKLRKSKANMG 327
Query: 465 SY 466
Y
Sbjct: 328 EY 329
>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 = 102 bits (254), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 51/114 (44%), Positives = 76/114 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL QI+ L +E+ +S+L + GR P+ E A A+GL+ R L+ +LH
Sbjct: 109 LLKPDEEVELANQIRYLNEIEELRSQLTQELGRCPSKAELADAVGLTERQLEHQLHRSRV 168
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 169 AKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRATEKFDPDKGYKFS 222
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 51/71 (71%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + ++RQ + ++L +L +E+ I+ LR+G+ KP +L EVG +F LS+ERVRQ
Sbjct: 325 PESQMSETMLRQEIWDVLGNVLTEREKDIISLRYGLSSNKPCTLEEVGGLFNLSRERVRQ 384
Query: 448 LESRALYRLKQ 458
++S+A+ +L++
Sbjct: 385 IQSKAMRKLRR 395
>gi|17231302|ref|NP_487850.1| RNA polymerase sigma factor SigD [Nostoc sp. PCC 7120]
gi|8489797|gb|AAF75755.1|AF262216_2 group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120]
gi|17132944|dbj|BAB75509.1| group 2 sigma 70-type sigma factor D [Nostoc sp. PCC 7120]
Length = 332
Score = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL+ +EE Q+Q L++ + +L +Q GREP++ EWAKA
Sbjct: 22 TDLVRTYLREIGRVPLLSHEEEIRYGKQVQRSTTLQEMREELATQSGREPSVEEWAKAAN 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ DL + G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 LNPADLLEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPTKGYRFST 151
Score = 56.2 bits (134), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 52/96 (54%), Gaps = 1/96 (1%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ + + G + G D +Q L + L+ L P+++ ++ LRFG+ DG+ +
Sbjct: 235 DNYDTELGEMLEDPGASPEDFVMQSSL-SNDLEVLMEQLTPQQKEVITLRFGLIDGQALT 293
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
L+ +G I +S+ERVRQ+E AL +L++S Y
Sbjct: 294 LARIGEILNISRERVRQIEREALTKLRKSKANMGEY 329
>gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205]
Length = 470
Score = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 81/134 (60%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ ++ G P EWA
Sbjct: 155 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELANQFEADNGHYPDTKEWA 214
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 215 TLVEMPLVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 274
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 275 AEKFDHEKGYKFST 288
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 381 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 440
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 441 TRERIRQIEAKALRKLRH 458
>gi|124022691|ref|YP_001016998.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
gi|123962977|gb|ABM77733.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
Length = 320
Score = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 66/192 (34%), Positives = 109/192 (56%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+L+ LE+ +S+L+ + G + E AKA GLS LK +L SG
Sbjct: 25 LLSHEQEITLGRQVQELMSLEQLESELEGKTGAPASRKELAKAAGLSELQLKKKLQSGRR 84
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R + + E G+ ++SE+ L
Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----EMGRTPTVSELAEFVEL 199
Query: 441 SKERVRQLESRA 452
+E V+ L RA
Sbjct: 200 PEEEVKDLMCRA 211
Score = 45.4 bits (106), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+ M+ +R LL L + ++R+R+GI+ G+P +L+ + G+S++R R+L
Sbjct: 240 PSEKVEVDCMKGDLRTLLEKLPELQGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRL 299
Query: 449 ESRALYRLKQS 459
E L ++ S
Sbjct: 300 EREGLALMRTS 310
>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 = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 57/143 (39%), Positives = 83/143 (58%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ L + K +L G
Sbjct: 4 ANVNSKTKQPMYSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EP+ EWAKA+ L +LK + GN ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 TEPSDKEWAKAVNLKEPELKKTIEQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 72.0 bits (175), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 54/78 (69%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++L+RQ ++NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ Y
Sbjct: 307 EHQALAQLRRRRANVKEY 324
>gi|113954287|ref|YP_730230.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
gi|113881638|gb|ABI46596.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
Length = 318
Score = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 108/193 (55%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL-IEWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++L+ Q G E EWAKA G+S LK +L +G
Sbjct: 22 LLSHQQEITLGRQVQELMDLEALEAELKDQRGGEEVARDEWAKAAGMSAAQLKRKLQAGR 81
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 82 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 141
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + E G+ S++E+ +
Sbjct: 142 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----ELGRTPSVTELASFVE 196
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 197 LPEEEVKDLMCRA 209
Score = 41.2 bits (95), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A G E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ + +
Sbjct: 231 LAGDG-ELPSDQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIAKSMKM 289
Query: 441 SKERVRQLESRALYRLKQS 459
S++R R+LE L L++
Sbjct: 290 SRDRTRRLEREGLEMLRRG 308
>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 = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 56/143 (39%), Positives = 82/143 (57%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ L + K +L G
Sbjct: 4 ANVNTKTKQPTYSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMSLLETKEELAQSLG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+EP+L EWAK + L + L L G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 KEPSLQEWAKEVNLEEKALTKALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/78 (44%), Positives = 55/78 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PDI + ++L+RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ G Y
Sbjct: 307 EHQALAQLRRRRGNVKEY 324
>gi|78211648|ref|YP_380427.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9605]
gi|78196107|gb|ABB33872.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9605]
Length = 335
Score = 102 bits (253), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 53/115 (46%), Positives = 80/115 (69%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q+L+ LE +S+L+S+ G +P+ + AKA GLS LK +L G
Sbjct: 40 LLTHEQEITLGRQVQELMDLESLESELKSKAGEKPSRDQLAKASGLSSIQLKRKLQHGRR 99
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 154
Score = 48.5 bits (114), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
++P V++ ++ +R+LL L + ++R+R+G++ P SL+ +G I G+S++RVR
Sbjct: 253 DLPSDQVEEDCLKGDLRSLLGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVR 312
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 313 NLERDGLAGLRR 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 = 102 bits (253), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 65/230 (28%), Positives = 124/230 (53%), Gaps = 18/230 (7%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N + + K+ S + D ++ +L + LLT ++E EL +IQDL+ LE + +L+
Sbjct: 236 NVVRKTTKRDPSTSRRQTDSMKTYLKDIGSVSLLTGEQEVELAMRIQDLVYLEGVREQLE 295
Query: 297 SQFGR-----EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
+ R E + +WA A ++ R+LK L +G ++ ++I ANLRLVV +AK+Y +
Sbjct: 296 EEAKRRKQTSEVSNFDWAIAANVTERELKERLDAGKRAKNQMIQANLRLVVSIAKRYANK 355
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG------VEIPDISVQKQLMR--QHVR 403
+S DL+QEG +GL++ EKF + G +F+ IS Q + +R H+
Sbjct: 356 SMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLF 415
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+++ ++ ER +V ++ G+ + E+ + ++ E++ Q++ +L
Sbjct: 416 EIISRMSKVERQLV-----MKYGRDPTTEEIAEVMDMTVEKINQIQKASL 460
Score = 82.0 bits (201), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 58/72 (80%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD + K L+++ + N+L L+P+ER ++RLR+G++DG+ K+L E+GN+F +++ER+R
Sbjct: 487 EHPDDATGKVLLKEDLENVLNTLSPRERDVLRLRYGMDDGRVKTLEEIGNVFSVTRERIR 546
Query: 447 QLESRALYRLKQ 458
Q+E++AL +L+Q
Sbjct: 547 QIEAKALRKLRQ 558
>gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
Length = 318
Score = 102 bits (253), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 65/223 (29%), Positives = 116/223 (52%), Gaps = 17/223 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-- 312
D ++ ++ LL +EE L +IQ LI+ E+ + +L+ Q R PT EWA AI
Sbjct: 1 DSMKYYMKTMGNHDLLQKNEEIILAREIQILIKWEEVREELEGQLLRPPTYQEWANAIEP 60
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
G++ +K ++ ++ L +NLRLV+ +AK+YQGRG+++ DL QEG++GL ++ EK
Sbjct: 61 GMTVTQIKKQIRRSLRAKAALTESNLRLVISIAKRYQGRGLNMQDLCQEGTLGLTRACEK 120
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIE 424
F P+ G RF+ + + + Q H+ + L+++ ER + E
Sbjct: 121 FDPERGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLSIVRKAERDLQN-----E 175
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLESRAL--YRLKQSLGGKAS 465
G+ + EV G+ +++ L+ ++ ++Q LG S
Sbjct: 176 LGRDATKEEVAAKVGMKPDKIEFLKRASVGSISMEQELGTSGS 218
Score = 73.2 bits (178), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 31/79 (39%), Positives = 55/79 (69%)
Query: 394 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
Q ++++ V L+ LN +E+ ++R+RFG++DGK K+L E+G F +++ER+RQ+E+RAL
Sbjct: 240 QYRMLQDDVGRLICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTRERIRQIEARAL 299
Query: 454 YRLKQSLGGKASYGYADLL 472
++L+Q YA+ L
Sbjct: 300 HKLRQPYRNHTVKCYANEL 318
>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 = 102 bits (253), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L ++K +L + G+EP L EWA + +
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDQLAIELGKEPNLTEWANQVQM 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L + G ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 34/81 (41%), Positives = 54/81 (66%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++LMRQ + +LL L P++R ++ LRFG++DGK SL+++G +S+ERVRQL
Sbjct: 247 PDNYITQELMRQDLHDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL +L++ Y A
Sbjct: 307 EHQALSQLRRRRSNVKEYIVA 327
>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 = 102 bits (253), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 53/131 (40%), Positives = 79/131 (60%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
D +D + F LL ADEE EL ++Q L+ ++ + L S+ R T E A A
Sbjct: 68 DSDDAVGAFFKEMARYPLLKADEEVELAKRVQFLVEVDNLQESLSSKLNRRATQAETAAA 127
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
GL+ R L+ +L+ G ++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ E
Sbjct: 128 FGLTERQLEQKLYQGRVAKRKMIRSNLRLVVSIAKRYLNRGVQFLDLIQEGAMGLNRATE 187
Query: 372 KFKPQAGCRFA 382
KF P G +F+
Sbjct: 188 KFDPDKGYKFS 198
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + ++L +L P+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ
Sbjct: 301 PEQQMNETMMRQEIWDVLADVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQ 360
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 361 IQSKAMRKLRRPQIAKRLKGW 381
>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 = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 79/135 (58%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ + S G P EW
Sbjct: 145 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAEQFNSDHGHYPNNKEW 204
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 205 ASLVEMPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 264
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 265 AAEKFDHEKGYKFST 279
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 372 FIESDTENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEV 431
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 432 TRERIRQIEAKALRKLRH 449
>gi|123965795|ref|YP_001010876.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT
9515]
gi|123200161|gb|ABM71769.1| Putative principal RNA polymerase sigma factor [Prochlorococcus
marinus str. MIT 9515]
Length = 397
Score = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 82 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQFESEKGHFPSVREWA 141
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 142 ELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 201
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 202 AEKFDHEKGYKFST 215
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 308 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 367
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 368 TRERIRQIEAKALRKLR 384
>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 = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E Q+Q ++ L +K +L REPTL EWA+A
Sbjct: 18 DMVRTYLQEIGKVPLLSHEQEIVFGKQVQIMMSLYAQKEELAENLDREPTLEEWAQAAEK 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +LK +H G +++K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 TPAELKKLIHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGFKFST 146
Score = 72.8 bits (177), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/78 (44%), Positives = 53/78 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++LMRQ + LL L +++ +VRLRFG++DGK SL+++G G+S+ERVRQL
Sbjct: 247 PDKYITQELMRQDLHKLLDELTTQQQEVVRLRFGLDDGKELSLAKIGQRMGISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ G Y
Sbjct: 307 EQQALAHLRKKRGSVKEY 324
>gi|428220179|ref|YP_007104349.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7502]
gi|427993519|gb|AFY72214.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7502]
Length = 334
Score = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 75/237 (31%), Positives = 115/237 (48%), Gaps = 15/237 (6%)
Query: 246 KLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL 305
K +G D +R +L LLT +EE Q+Q L+ + L QF R PT
Sbjct: 15 KAKQGTLSADMVRTYLHEIGKIPLLTNEEEIIYGKQVQHLMGYITTQETLSEQFDRLPTQ 74
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
EWA+A+GL L L G ++ K+I ANLRLVV VAK+YQ R + L DL+QEG++G
Sbjct: 75 EEWAQAVGLEPNALNDALKQGTRAKRKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLG 134
Query: 366 LMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIV 417
L ++V+KF P G +F+ ++ + + +Q H+ L + +R +
Sbjct: 135 LERAVDKFDPTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPVHITEKLNKIKKAQRQLA 194
Query: 418 RLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES--RALYRLKQSLGGKASYGYADLL 472
+ + G+ + +EV + E+VR+ S R L +G ADLL
Sbjct: 195 Q-----DLGRVATAAEVAETLEIKPEQVRECLSLARQPISLDLRIGDNQDTELADLL 246
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + +R V++LL+ L+PK+R ++ LR+G+EDG+ SL+ + LS+E+VRQL
Sbjct: 253 PETYALNESLRDGVQSLLSELSPKQRQVMILRYGLEDGQELSLASISKRMDLSREQVRQL 312
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 313 ERQAMDALRK 322
>gi|78778882|ref|YP_396994.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT
9312]
gi|78712381|gb|ABB49558.1| Sigma-70 factor [Prochlorococcus marinus str. MIT 9312]
Length = 393
Score = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 78 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 138 ELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 197
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 198 AEKFDHEKGYKFST 211
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 304 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 363
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLRH 381
>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 = 101 bits (252), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 83/129 (64%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L +LL A+EE EL +I DL+ LE+ + +++ + RE + EW K + +
Sbjct: 70 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERIRERIEDELDREISDAEWGKEVDM 129
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R + L G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 130 ELRPFRRRLFLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 189
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 190 HEKGYKFST 198
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 291 FIEADGETPEDQVSKSLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 350
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 351 TRERIRQIEAKALRKLR 367
>gi|172035517|ref|YP_001802018.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC
51142]
gi|354555605|ref|ZP_08974906.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171696971|gb|ACB49952.1| group 2 sigma-70 RNA polymerase sigma factor E [Cyanothece sp. ATCC
51142]
gi|353552664|gb|EHC22059.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 374
Score = 101 bits (252), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL +Q L++ E+ + +LQ P+ EWAKA+G + + LH G
Sbjct: 75 LLNAEEEVELAHHVQFLVQAEETRQQLQEALQHSPSKAEWAKAMGFETQKQFEHRLHRGR 134
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 135 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 189
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + ++R V +L+ +L +E+ ++ LR+G+ +P +L EVG IF LS+ER
Sbjct: 289 LQLPEELMNEGMLRYEVSAVLSDVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRER 348
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 349 VRQIQSKAMRKLRR 362
>gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta]
Length = 490
Score = 101 bits (252), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 108/204 (52%), Gaps = 14/204 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L +LL +EE +L +I L+ E K L+ + REPT EW A
Sbjct: 129 DDSVRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACK 188
Query: 314 LS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
+S + +S LH+ ++E+++ ANLRLVV +AK+Y RG+SL DL+QEGS+GL+++ EK
Sbjct: 189 VSDVKKFRSILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEK 248
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIE 424
F + G +F+ +V + + H+ + ++ + R + IE
Sbjct: 249 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTL-----NIE 303
Query: 425 DGKPKSLSEVGNIFGLSKERVRQL 448
G+ + E+ +S E++R +
Sbjct: 304 IGRSPTEEEIAEKMDMSVEKLRSV 327
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V+K ++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +
Sbjct: 353 FIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSV 412
Query: 441 SKERVRQLESRALYRLKQ 458
++ERVRQ+E++A+ +L+Q
Sbjct: 413 TRERVRQIEAKAIRKLRQ 430
>gi|57864855|gb|AAW57030.1| putative group 2 RNA polymerase sigma factor [Cyanothece sp. ATCC
51142]
Length = 368
Score = 101 bits (252), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL +Q L++ E+ + +LQ P+ EWAKA+G + + LH G
Sbjct: 69 LLNAEEEVELAHHVQFLVQAEETRQQLQEALQHSPSKAEWAKAMGFETQKQFEHRLHRGR 128
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 129 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 183
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + ++R V +L+ +L +E+ ++ LR+G+ +P +L EVG IF LS+ER
Sbjct: 283 LQLPEELMNEGMLRYEVSAVLSDVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRER 342
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 343 VRQIQSKAMRKLRR 356
>gi|307153454|ref|YP_003888838.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC
7822]
gi|306983682|gb|ADN15563.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7822]
Length = 372
Score = 101 bits (252), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 79/115 (68%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL +EE EL ++ L+ E+++ +LQ Q R P+ +EWA+A+GL R L++ L+ G
Sbjct: 73 LLKPEEEIELAYTVKFLMESEEKRQELQVQLERPPSKLEWAQAMGLKNERQLENRLYRGR 132
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 133 AAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 187
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 50/181 (27%), Positives = 92/181 (50%), Gaps = 34/181 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + L+ Q R PT E A+A+ + C L R + ++ N
Sbjct: 213 IHIVEKLNKLKKAQRVLKQQLHRNPTEQELAQALEIDC----EHLRQLLQLRRQSLSLNH 268
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G L DLL++ + ++P+ + + +M
Sbjct: 269 RV-------GKGEDTELVDLLEDEEL----------------------QLPEEKMNEAMM 299
Query: 399 RQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
RQ + +LT +L +E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L+
Sbjct: 300 RQDIAAVLTDVLTEREKDVIALRYGLITSQPYTLEEVGGIFNLSRERVRQIQSKAMRKLR 359
Query: 458 Q 458
+
Sbjct: 360 R 360
>gi|254525463|ref|ZP_05137515.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202]
gi|221536887|gb|EEE39340.1| sigma-70 factor [Prochlorococcus marinus str. MIT 9202]
Length = 393
Score = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 78 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 138 ELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 197
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 198 AEKFDHEKGYKFST 211
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 304 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 363
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLRH 381
>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 = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L ++K +L Q REP+L EWA + +
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLEKKDELAIQLEREPSLTEWANHVQM 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L + G ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SEEELNRAIQQGKRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 34/81 (41%), Positives = 55/81 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++LMRQ +++LL L P++R ++ LRFG++DGK SL+++G +S+ERVRQL
Sbjct: 247 PDNYITQELMRQDLQDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL +L++ Y A
Sbjct: 307 EHQALSQLRRRRSNVKEYIVA 327
>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 = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 79/135 (58%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ + S G P EW
Sbjct: 128 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAEQFNSDHGHYPNNKEW 187
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 188 AALVEMPNIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 247
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 248 AAEKFDHEKGYKFST 262
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 355 FIESDTENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEV 414
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 415 TRERIRQIEAKALRKLRH 432
>gi|219111033|ref|XP_002177268.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217411803|gb|EEC51731.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 324
Score = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 47/116 (40%), Positives = 77/116 (66%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTADEE+ L +IQ +I+ E L S+ R PT+ EWA A G + D + +
Sbjct: 10 ELLTADEEYSLGMKIQFMIKCELVHEGLSSKLMRLPTIEEWAAACGGTATDFVEMVMTSR 69
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++++++ +N+RLVV +A++Y G+SL DL+QEGS+GL ++ EKF+P+ G +F+
Sbjct: 70 EAKQRMVQSNMRLVVSIARKYSNVGVSLQDLVQEGSLGLSRAAEKFEPKKGFKFST 125
Score = 40.8 bits (94), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 77/178 (43%), Gaps = 29/178 (16%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L R+ K ++ LQ + R PT E A+ +G++ + K++ R +
Sbjct: 156 LNRVRKVRNNLQRELSRTPTNEEMAEELGMTLQKYN-----------KMLRLTKRSISLE 204
Query: 345 AKQYQGR----GISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
+YQ G HDLL + + S F P+ V + + +
Sbjct: 205 TPKYQSNPKDLGHESHDLLGDT---ISASSALFDEST-----------PEKRVDRGIFHE 250
Query: 401 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ +L +L+ ER ++ R+G+ DG ++++ V + SK VR E RAL +L++
Sbjct: 251 DLHEMLEILDEDERRVICSRYGLSDGLTRTVTAVASQMKQSKAWVRSQECRALRKLRR 308
>gi|22298374|ref|NP_681621.1| RNA polymerase sigma factor [Thermosynechococcus elongatus BP-1]
gi|22294553|dbj|BAC08383.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus
BP-1]
Length = 309
Score = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 75/115 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q ++ L +++ L + GRE T EWA A L+ +L + L G
Sbjct: 14 LLTHEQEIILGKQVQQMMALREKRDALTKELGREATFEEWAAACNLTPTELCNILKRGER 73
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF P G +F+
Sbjct: 74 AKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFDPTRGYKFST 128
Score = 48.5 bits (114), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 50/176 (28%), Positives = 85/176 (48%), Gaps = 34/176 (19%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L ++++ + +L + GR T E AKA+ L ++ L ++ +LR+
Sbjct: 157 EKLNKIKRTQRELAQKLGRSATPAEVAKALELEPEQIREYLTLARQP----VSLDLRV-- 210
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L +LL++ S+ S E+F T VE +R V
Sbjct: 211 -----GDNQDTELGELLEDDSL----SPEQF----------TTVES---------LRDDV 242
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L L P++R ++ LR+G+ DG+ SL++VG LS+ERVRQLE +AL L++
Sbjct: 243 NLWLAELTPQQRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALDHLRR 298
>gi|88808921|ref|ZP_01124430.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
gi|88786863|gb|EAR18021.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
Length = 322
Score = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 109/193 (56%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++LQ + G E L E AKA GLS LK +L +G
Sbjct: 25 LLSHQQEITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLSAVQLKRKLQAGR 84
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + E G+ S++E+ +
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----ELGRTPSVTELASFVE 199
Query: 440 LSKERVRQLESRA 452
L ++ V++L RA
Sbjct: 200 LPEDEVKELMCRA 212
Score = 44.3 bits (103), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A G E+P V+ + ++ +R+LL L + ++R+R+G++ +P SL+ + +
Sbjct: 234 LAGDG-ELPSEQVEGECLKGDLRDLLGQLPELQERVLRMRYGMDGEEPMSLTGIAKTLKM 292
Query: 441 SKERVRQLESRALYRLKQS 459
S++R R+LE L L+Q+
Sbjct: 293 SRDRTRRLEREGLQSLRQA 311
>gi|157412913|ref|YP_001483779.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT
9215]
gi|157387488|gb|ABV50193.1| Putative principal RNA polymerase sigma factor [Prochlorococcus
marinus str. MIT 9215]
Length = 393
Score = 101 bits (251), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 78 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 138 ELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 197
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 198 AEKFDHEKGYKFST 211
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 304 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 363
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 364 TRERIRQIEAKALRKLRH 381
>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 = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 80/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q +++L + K L + GRE +L EW + +GL
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIIFGKQVQKMMKLVEAKEALAKKLGREVSLEEWTQEVGL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +LK + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 AETELKKTVLEGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGALGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R ++ LRFG+ DG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQRQVLALRFGLSDGNEMSLAKVGERLSLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|124026787|ref|YP_001015902.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL1A]
gi|123961855|gb|ABM76638.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. NATL1A]
Length = 335
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 78/115 (67%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+QDL+ LE +++L+S G +P + +A GLS LK +L SG
Sbjct: 40 LLSHEQEITLGRQVQDLVVLENLETELESDLGEKPDINFFADKAGLSPIQLKKKLKSGRR 99
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 154
Score = 48.1 bits (113), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 44/74 (59%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+++P ++ M+ + LL L + ++R+R+G++ P SL+ +G + G+S++RV
Sbjct: 252 IDMPSEQIESDCMKGDLETLLEQLPELQNRVLRMRYGMDGDDPMSLTGIGRVLGISRDRV 311
Query: 446 RQLESRALYRLKQS 459
R LE L L+++
Sbjct: 312 RNLERDGLRGLRKT 325
>gi|407961401|dbj|BAM54641.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 328
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/115 (45%), Positives = 72/115 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q ++ L + K L + GREP+ EWA+A LS L L G
Sbjct: 32 LLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWAEAADLSVTKLHRYLGQGER 91
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F+
Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFST 146
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 55/81 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++ MRQ ++NLL L P+++ ++ +RFG+ DG+ SL+++G +S+ERVRQL
Sbjct: 247 PDAYITQESMRQDLQNLLAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E++AL +LK+ A Y A
Sbjct: 307 ENQALAQLKRRRANMAEYIIA 327
>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 = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/115 (45%), Positives = 72/115 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q ++ L + K L + GREP+ EWA+A LS L L G
Sbjct: 49 LLTHEQEIILGKQVQQMMALLEHKKALADRLGREPSDPEWAEAADLSVTKLHRYLGQGER 108
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F+
Sbjct: 109 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFST 163
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 33/81 (40%), Positives = 55/81 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++ MRQ ++NLL L P+++ ++ +RFG+ DG+ SL+++G +S+ERVRQL
Sbjct: 264 PDAYITQESMRQDLQNLLAELTPQQQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQL 323
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E++AL +LK+ A Y A
Sbjct: 324 ENQALAQLKRRRANMAEYIIA 344
>gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii]
gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii]
Length = 485
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 61/204 (29%), Positives = 108/204 (52%), Gaps = 14/204 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L +LL +EE +L +I L+ E K L+ + REPT EW A
Sbjct: 129 DDSVRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACK 188
Query: 314 LS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
+S + ++ LH+ ++E+++ ANLRLVV +AK+Y RG+SL DL+QEGS+GL+++ EK
Sbjct: 189 VSDVKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEK 248
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIE 424
F + G +F+ +V + + H+ + ++ + R + IE
Sbjct: 249 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTL-----NIE 303
Query: 425 DGKPKSLSEVGNIFGLSKERVRQL 448
G+ + E+ +S E++R +
Sbjct: 304 IGRSPTEEEIAEKMDMSVEKLRSV 327
Score = 79.0 bits (193), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V+K ++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +
Sbjct: 353 FIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSV 412
Query: 441 SKERVRQLESRALYRLKQ 458
++ERVRQ+E++A+ +L+Q
Sbjct: 413 TRERVRQIEAKAIRKLRQ 430
>gi|399950016|gb|AFP65672.1| RNA-polymerase sigma factor [Chroomonas mesostigmatica CCMP1168]
Length = 485
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 61/204 (29%), Positives = 108/204 (52%), Gaps = 14/204 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L +LL +EE +L +I L+ E K L+ + REPT EW A
Sbjct: 132 DDSVRWYLQLIGRVRLLRPEEEIQLAREISQLLHWEHVKISLREKLQREPTSSEWTAACK 191
Query: 314 LS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
+S + ++ LH+ ++E+++ ANLRLVV +AK+Y RG+SL DL+QEGS+GL+++ EK
Sbjct: 192 VSDVKKFRAILHNARRAKERMVAANLRLVVSIAKRYVNRGMSLQDLIQEGSLGLIRAAEK 251
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIE 424
F + G +F+ +V + + H+ + ++ + R + IE
Sbjct: 252 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTL-----NIE 306
Query: 425 DGKPKSLSEVGNIFGLSKERVRQL 448
G+ + E+ +S E++R +
Sbjct: 307 IGRSPTEEEIAEKMDMSVEKLRSV 330
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V+K ++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +
Sbjct: 356 FIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSV 415
Query: 441 SKERVRQLESRALYRLKQ 458
++ERVRQ+E++A+ +L+Q
Sbjct: 416 TRERVRQIEAKAIRKLRQ 433
>gi|166368031|ref|YP_001660304.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
gi|166090404|dbj|BAG05112.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
Length = 377
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWASALQLDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|425464726|ref|ZP_18844036.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9809]
gi|389833185|emb|CCI22530.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9809]
Length = 377
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLNAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWANALQLDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|123968088|ref|YP_001008946.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str.
AS9601]
gi|123198198|gb|ABM69839.1| Putative principal RNA polymerase sigma factor [Prochlorococcus
marinus str. AS9601]
Length = 394
Score = 101 bits (251), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 79 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 139 ELIDMPLAKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 198
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 199 AEKFDHEKGYKFST 212
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 305 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 364
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 365 TRERIRQIEAKALRKLRH 382
>gi|254430889|ref|ZP_05044592.1| possible type II alternative RNA polymerase sigma factor [Cyanobium
sp. PCC 7001]
gi|197625342|gb|EDY37901.1| possible type II alternative RNA polymerase sigma factor [Cyanobium
sp. PCC 7001]
Length = 327
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 68/201 (33%), Positives = 105/201 (52%), Gaps = 21/201 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+RL+L LL +EE L RL +E+ +L Q G + L WA G
Sbjct: 19 SDPIRLYLREIGRVDLLRQEEEILLA-------RLVQEREELLRQRG-DGELTAWAGRCG 70
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ DL+ LH G ++E+++ ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VE++
Sbjct: 71 VPPADLRQALHRGRRAKERMLQANLRLVVAVAKKYQRRGLDLLDLIQEGTLGLERAVERY 130
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIED 425
P+ G RF+ + + L Q HV L + + + R E
Sbjct: 131 DPRRGFRFSTYAYWWIRQGITRALASQSRTIRLPVHVTETLNRIRTCQGELTR-----EH 185
Query: 426 GKPKSLSEVGNIFGLSKERVR 446
G+ +L+E+ GL + R+R
Sbjct: 186 GRQPTLAELARAVGLDEARLR 206
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 63/222 (28%), Positives = 99/222 (44%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLRLF-------LWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L +R DP R F W + TR L + L + + L R+ + +L
Sbjct: 123 LERAVERYDPRRGFRFSTYAYWWIRQGITRALASQSRTIRLPVHVTETLNRIRTCQGELT 182
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR+PTL E A+A+GL L+S L H+ R +SL
Sbjct: 183 REHGRQPTLAELARAVGLDEARLRSTL------------------AHIP-----RPVSL- 218
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
EG +G P+ ++ +Q + + LL L+ +E +
Sbjct: 219 ----EGRVGANADTPLVD------LLEDDHATPEQTLTRQQLHADLEALLDELSAREATV 268
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+R RFG++D P++L+E+G LS+ERVRQ+ESRAL +L+Q
Sbjct: 269 IRQRFGLDDDTPRTLAEIGEQLQLSRERVRQIESRALLKLRQ 310
>gi|72383045|ref|YP_292400.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL2A]
gi|72002895|gb|AAZ58697.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. NATL2A]
Length = 335
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 78/115 (67%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+QDL+ LE +++L+S G +P + +A G+S LK +L SG
Sbjct: 40 LLSHEQEITLGRQVQDLVSLENLETELESDLGEKPDINFFADKAGISPIQLKKKLKSGRR 99
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 154
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 44/74 (59%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+++P ++ M+ + LL L + ++R+R+GI+ P SL+ +G + G+S++RV
Sbjct: 252 IDMPSEQIESDCMKGDLETLLEQLPELQNRVLRMRYGIDGDDPMSLTGIGRVLGISRDRV 311
Query: 446 RQLESRALYRLKQS 459
R LE L L+++
Sbjct: 312 RNLERDGLRGLRKT 325
>gi|449019011|dbj|BAM82413.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 649
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 63/205 (30%), Positives = 107/205 (52%), Gaps = 13/205 (6%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC 316
LR +L +LT +EE L QI L+ E+++ +L R PT E A+ +G+
Sbjct: 326 LRWYLRMIGRVDMLTPEEEVSLSRQISRLLHWERKRIELHGALDRAPTDDELAEHLGVDP 385
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
+ L ++++++ ANLRLVV +AK+Y +G+ L DL+QEGS+GL+++ EKF +
Sbjct: 386 ERFRRNLAEARRAKDRMVAANLRLVVSIAKRYMRKGLPLEDLIQEGSLGLIRAAEKFDDR 445
Query: 377 AGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKP 428
GCRF+ SV + L Q H+ + + + R IE G
Sbjct: 446 RGCRFSTYATWWVKQSVMRALADQGRIVRLPVHMHDRILAVRKAAR-----DLSIERGCE 500
Query: 429 KSLSEVGNIFGLSKERVRQLESRAL 453
+ +++ G+S++R+R+L S A+
Sbjct: 501 PTEADICERLGISRKRLRELRSLAV 525
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 45/73 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ ++R+ + L LLN E +VRLR+G++ G K++ EVG + L +E VR +
Sbjct: 561 PEEQIELSMLREDLERSLQLLNHVEMRVVRLRYGLDSGIAKTIDEVGALVRLPREEVRAI 620
Query: 449 ESRALYRLKQSLG 461
E+ A +L+ + G
Sbjct: 621 ENAAFRKLRHTSG 633
>gi|126695861|ref|YP_001090747.1| RNA polymerase sigma factor RpoD [Prochlorococcus marinus str. MIT
9301]
gi|126542904|gb|ABO17146.1| Putative principal RNA polymerase sigma factor [Prochlorococcus
marinus str. MIT 9301]
Length = 394
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 85/134 (63%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 79 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ I + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 139 ELIDMPLPKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 198
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 199 AEKFDHEKGYKFST 212
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 305 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 364
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 365 TRERIRQIEAKALRKLRH 382
>gi|33864638|ref|NP_896197.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. WH 8102]
gi|33632161|emb|CAE06617.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8102]
Length = 332
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 80/115 (69%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+QDL+ +E +++L+S+ G +P+ + AKA GL+ LK +L G
Sbjct: 37 LLTHEQEITLGRQVQDLMDIEAMQTELESRDGDKPSRDKLAKASGLTPLQLKRKLQHGRR 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 151
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 63/261 (24%), Positives = 115/261 (44%), Gaps = 54/261 (20%)
Query: 218 RRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG-------FDRNDPLR-------LF 260
RR+K+R V+ + V+ + Y R + + EG ++ DP R +
Sbjct: 95 RRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAY 154
Query: 261 LWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
W + TR + L I +++ +L+K + +L + GR PT+ E A+ + L
Sbjct: 155 WWIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTITELAQYVELPED 214
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
D+K ++ A+Q +SL E +G E + A
Sbjct: 215 DVKD-------------------LMCRARQ----PVSL-----EMKVGDGDDTELLELLA 246
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G ++P V++ M+ +R+LL L + ++R+R+G++ P SL+ +G I
Sbjct: 247 G------DADLPSDQVEEDCMKGDLRSLLGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRI 300
Query: 438 FGLSKERVRQLESRALYRLKQ 458
G+S++RVR LE L L++
Sbjct: 301 LGMSRDRVRNLERDGLAGLRR 321
>gi|88809912|ref|ZP_01125417.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
gi|88786102|gb|EAR17264.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
Length = 355
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 107/193 (55%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++LQ + G E L E AKA GLS LK +L +G
Sbjct: 59 LLSHQQEITLGRQVQELMELESVEAELQEKRGGEAVLAAELAKAAGLSAVQLKRKLQAGR 118
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 119 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 178
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R E G+ S++E+ +
Sbjct: 179 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQELGRTPSVTELASFVE 233
Query: 440 LSKERVRQLESRA 452
L ++ V++L RA
Sbjct: 234 LPEDEVKELMCRA 246
Score = 50.1 bits (118), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 46/72 (63%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL L + ++R+R+G++ +P SL+ +G + G+S++RVR
Sbjct: 273 ELPSEQVEGECLKGDLRDLLGQLPELQERVLRMRYGMDGEEPMSLTGIGRVIGISRDRVR 332
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 333 NLERDGLAGLRR 344
>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 = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 56/143 (39%), Positives = 83/143 (58%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ L + K +L G
Sbjct: 4 ANVNSKTKQPMYSADMVRTYLHEIGRVPLLTHEQEIVYGKQVQRMMSLFEMKDQLTQAQG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EP+ EWAKA+ L +L+ + GN ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 TEPSDKEWAKAVNLKEPELQKTIEQGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 72.0 bits (175), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 54/78 (69%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++L+RQ ++NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ Y
Sbjct: 307 EHQALAQLRRRRANVKEY 324
>gi|427714236|ref|YP_007062860.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
gi|427378365|gb|AFY62317.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
Length = 325
Score = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 55/130 (42%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E L Q+Q L+RL + L ++ GREPTL E A
Sbjct: 15 TDMVRTYLHEIGRVPLLTHEQEIILGKQVQQLMRLRDLEETLTTELGREPTLAELATVAE 74
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ L L G +++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF
Sbjct: 75 MPPEKLNLALRKGQRAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKF 134
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 135 DPTRGYKFST 144
Score = 53.1 bits (126), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 43/61 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + + L L+P++R ++ LR+G+ DG+ SL++VG LS+ERVRQLE +AL L+
Sbjct: 254 LRDDMHHWLAELSPQQRQVLSLRYGLSDGQELSLAKVGEQLSLSRERVRQLERQALDHLR 313
Query: 458 Q 458
+
Sbjct: 314 R 314
>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 = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 83/135 (61%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 140 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAAQFESDNGREPDTKEW 199
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 200 AALVEMPVIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 259
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 260 AAEKFDHEKGYKFST 274
Score = 79.0 bits (193), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 367 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 426
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 427 TRERIRQIEAKALRKLR 443
>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 = 100 bits (250), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ ++K +L + G
Sbjct: 4 ANVNTKTKQPMYSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+EPT+ EW+K + + + L L G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 KEPTVKEWSKELEIEQKALNQALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 55/78 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD+ + ++L+RQ +RNL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ Y
Sbjct: 307 EHQALAQLRRRRANVKEY 324
>gi|218441429|ref|YP_002379758.1| RNA polymerase sigma factor SigD [Cyanothece sp. PCC 7424]
gi|218174157|gb|ACK72890.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 318
Score = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LLT +EE L ++Q + L+ K L REP EWA A
Sbjct: 8 TDPVRAYLREIGRVPLLTHEEEIVLAKRVQRFMALQDIKDALTQTLKREPQDSEWASAAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ +L + +G +++EK++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 ITEEELHRAIAAGKAAKEKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 55.1 bits (131), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 29/89 (32%), Positives = 52/89 (58%), Gaps = 1/89 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG D + L + + L++ L P+++ ++ LRFG+ DG+P +L+++G
Sbjct: 228 GELLEDTGTSPEDYATHSSL-QVDLEKLMSDLTPQQKEVLALRFGLVDGQPLTLAKIGVR 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASY 466
+S+ERVRQ+E AL +L++ G Y
Sbjct: 287 LNISRERVRQIEREALSKLRKRKGNIKEY 315
>gi|428204839|ref|YP_007100465.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428012958|gb|AFY91074.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 324
Score = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 56/131 (42%), Positives = 77/131 (58%), Gaps = 1/131 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R++L LLT ++E Q+Q I L+ K L Q GREP+L EWAKA G
Sbjct: 12 TDLIRIYLREIGRVPLLTHEQEILFGKQVQRSIALQLVKDSLTKQLGREPSLDEWAKASG 71
Query: 314 -LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
L L + G S++ K++ ANLRLVV +AK+Y R + L DL+QEG++GL + VEK
Sbjct: 72 KLDNTQLTQAIADGESAKRKIVEANLRLVVSIAKKYTKRNLELLDLIQEGTIGLHRGVEK 131
Query: 373 FKPQAGCRFAN 383
F P G R +
Sbjct: 132 FDPTKGYRLST 142
Score = 47.0 bits (110), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 41/62 (66%), Gaps = 3/62 (4%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++Q + +LTL +++ ++ LRFG+EDG+ SL +G S+ERVRQ++ AL +L+
Sbjct: 256 LKQVMAAVLTL---QQQQVLSLRFGLEDGRALSLKNIGERLNFSRERVRQIQQEALAKLR 312
Query: 458 QS 459
+
Sbjct: 313 KC 314
>gi|973980|gb|AAB05357.1| RNA polymerase sigma factor, partial [Cyanidium caldarium]
Length = 609
Score = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 49/118 (41%), Positives = 73/118 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT + L +I+ L + +L+ ++G+EP EWAKA+ +S +L L
Sbjct: 273 LLTESQVVSLAREIRKLALWNATRIQLRHEYGKEPDRTEWAKALNMSAEELTRNLLRAQR 332
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV 386
+RE L+ ANLRLVV VAKQ+ RG+S+ DL+QEGS+GL+K E+F + G RF+ +
Sbjct: 333 ARESLVAANLRLVVSVAKQFTNRGLSMQDLIQEGSIGLIKGAERFDYRTGFRFSTYAM 390
Score = 71.6 bits (174), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 111/227 (48%), Gaps = 16/227 (7%)
Query: 246 KLSEGFDRNDPLRL----FLWGPETRKLLTADEE--FELIAQIQDL-IRLEKEKSKLQSQ 298
K +E FD R W + + AD + + I DL +++ + + +L S
Sbjct: 372 KGAERFDYRTGFRFSTYAMWWIRQAMQRAIADTSRPIRIPSTITDLSVQIYRARLELSST 431
Query: 299 FGREPTLIEWAKAIGLSCRDLKS-ELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
GR+PT E A + +S + L+ +L++ S+ L R V + + +G G + D
Sbjct: 432 LGRDPTDAELADFLDISVQRLQDVKLYTNQSATVSLDAPVSRQVTNTCIKSKGTGDT--D 489
Query: 358 LLQEGSMG-LMKSVEKFKPQAGCRFANTGVEI-----PDISVQKQLMRQHVRNLLTLLNP 411
+ + G L K+ + + G V+ P+ + LMR + L+LLNP
Sbjct: 490 VFSSKADGKLSKNGYGSRHKLGDFTLGDTVQTDESVSPEHMMADSLMRDDIECALSLLNP 549
Query: 412 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
ER ++R+RFG++DG+ KS+ EV + + R+R++E+RAL +L+
Sbjct: 550 YEREVIRMRFGLDDGRMKSVDEVCAYYCVQTSRIRRIEARALRKLRH 596
>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 = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+V K + D +R +L LLT ++E Q+Q ++ ++K +L + G
Sbjct: 4 ANVNTKTKQPMYSADMVRTYLHEIGRVPLLTHEQEIIYGKQVQKMMNFLEKKEELADKLG 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+EPT+ EW+K + + + L L G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 KEPTVKEWSKELEIEQKALNQALEQGERAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL + VEKF P G +F+
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFST 146
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 55/78 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD+ + ++L+RQ +RNL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 247 PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ Y
Sbjct: 307 EHQALAQLRRRRANVKEY 324
>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 = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 62/192 (32%), Positives = 101/192 (52%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE L Q+Q L+ L S L REPT EWA A G+S +L + + +G
Sbjct: 3 LLTHEEEILLGKQVQKLMSLIAIHSSLVDTLDREPTRTEWAAAGGISEAELAAIVTAGEQ 62
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 63 AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPSKGYRFSTYAYWW 122
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
++ + + + H+ L + +R +F + G+ + SE+ G
Sbjct: 123 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQR-----QFTQQHGRTPTASEIAQATGF 177
Query: 441 SKERVRQLESRA 452
+ ++VR+ R+
Sbjct: 178 TIKQVREYLDRS 189
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 47/174 (27%), Positives = 87/174 (50%), Gaps = 34/174 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + + Q GR PT E A+A G + + ++ L + SR+ L +L L V
Sbjct: 148 LNKIKKAQRQFTQQHGRTPTASEIAQATGFTIKQVREYL---DRSRQPL---SLDLKVGD 201
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ Q L DLL++ + PD ++ ++
Sbjct: 202 NQDTQ-----LGDLLEDDG-----------------------QTPDDYATASSLKSDLKR 233
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ L P+++ ++ LRFG+EDGK +L+++G + +S+ERVRQ+E AL +L++
Sbjct: 234 IMADLTPQQQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLRK 287
>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 = 100 bits (249), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE + Q+Q L + + L +Q GREP+L EWA A
Sbjct: 22 TDLVRTYLREIGRVPLLTHEEEIQYGKQVQFSRILHEVRDSLINQIGREPSLEEWALAAN 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L + G +++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 LEVAELNDAIADGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPTKGYRFST 151
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/184 (23%), Positives = 87/184 (47%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L Q GR P+ E A+ + L+ + + RE L A L L +
Sbjct: 180 EKLNKIKKAQRQLSQQLGRAPSAAELAQELDLTPKQV----------REYLERARLPLSL 229
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
++ + + + G + G P+ V + + +
Sbjct: 230 D-----------------------LRLGDNYDTELGEMLEDPGAS-PEEFVMQSSLSYDL 265
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L P+++ +++LRFG+ DG+ +L+++G+I +S+ERVRQ+E AL +L++S
Sbjct: 266 ERLMEELTPQQKEVIKLRFGLLDGQALTLAKIGDILNISRERVRQIEREALTKLRKSKAS 325
Query: 463 KASY 466
Y
Sbjct: 326 MNEY 329
>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 = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L LLT ++E Q+Q L L K L ++ GR P+ EWA+A
Sbjct: 8 SDLVRTYLREIGRVPLLTHEQEVVFGKQVQRLTLLNDTKDGLANRLGRTPSFEEWAQASQ 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +LK + G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSSAELKQAIAEGEYAKRKMVEANLRLVVSVAKKYTKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 57/90 (63%), Gaps = 4/90 (4%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG + ++Q L R + +L+ L P++R ++ LRFG+EDG+ +L+++G+
Sbjct: 228 GELLEDTGTSPEEFALQSSL-RTDLESLMADLTPQQRQVLTLRFGLEDGQALTLAKIGDQ 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYG 467
+S+ERVRQ+E AL +L++ KAS G
Sbjct: 287 LNISRERVRQIEREALSKLRKR---KASIG 313
>gi|425437461|ref|ZP_18817876.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9432]
gi|440756281|ref|ZP_20935482.1| RNA polymerase sigma factor rpoD2 domain protein [Microcystis
aeruginosa TAIHU98]
gi|169883528|gb|ACA97859.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820]
gi|389677539|emb|CCH93515.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9432]
gi|440173503|gb|ELP52961.1| RNA polymerase sigma factor rpoD2 domain protein [Microcystis
aeruginosa TAIHU98]
Length = 377
Score = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|425454900|ref|ZP_18834625.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9807]
gi|389804301|emb|CCI16819.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9807]
Length = 377
Score = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|425447335|ref|ZP_18827325.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9443]
gi|389732113|emb|CCI03895.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9443]
Length = 377
Score = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|33241240|ref|NP_876182.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus subsp. marinus str. CCMP1375]
gi|33238770|gb|AAQ00835.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus subsp. marinus str. CCMP1375]
Length = 328
Score = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 59/149 (39%), Positives = 91/149 (61%), Gaps = 4/149 (2%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
+YN KK +E D +R +L LLT ++E L Q+Q+LI LEK + +
Sbjct: 3 SYNPLIVPAKKSATE----IDLVRSYLRDIGRVPLLTNEQEITLGRQVQELISLEKLERE 58
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L+S G++P+ + A G+S R+L L G ++E++++ANLRLVV VAK+Y R +
Sbjct: 59 LESTNGKKPSKEDLAIDAGISVRELSKRLKRGVRAKERMVSANLRLVVSVAKKYTKRNME 118
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L DL+QEG++GL++ VEKF P G +F+
Sbjct: 119 LLDLIQEGTIGLVRGVEKFDPARGYKFST 147
Score = 46.6 bits (109), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 45/82 (54%), Gaps = 7/82 (8%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
++PD ++ M+ + LL L + ++R+RFGI +P +L+ +G + G+S++RVR
Sbjct: 246 DLPDQQIELDCMKGDLEVLLQKLPELQNRVLRMRFGINGEEPMTLTGIGRMLGISRDRVR 305
Query: 447 QLESRALYRLKQSLGGKASYGY 468
L L+ L G YG+
Sbjct: 306 NL-------LRDGLKGLRQYGH 320
>gi|88809466|ref|ZP_01124974.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 7805]
gi|88786685|gb|EAR17844.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 7805]
Length = 376
Score = 100 bits (249), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 81/248 (32%), Positives = 121/248 (48%), Gaps = 53/248 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFEL--------------------IAQIQDLIRLEKEKS 293
ND LRL+L LLT++EE L IA I+ L+ LE+ +
Sbjct: 19 NDLLRLYLQDIGRVDLLTSEEEVTLSRQVQQRERLLVQERDLSTRIAAIRVLLDLEELQQ 78
Query: 294 KLQSQFGREPTLIEWAKAI----------------------GLSCRDLKSELHSGNSSRE 331
+ + PT EWA+A GL ++L+ L G +R+
Sbjct: 79 REANHISHWPTRQEWARAAELPLSELNRLLNEGYTLWAKESGLDTKELQQRLREGRRARD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ E G+ S+S++ G+S+E
Sbjct: 199 GI-TRAIATQSRTIRLPV-HITEKLNRIKR--VQQEIASEKGRLASVSDLAKELGVSEET 254
Query: 445 VRQLESRA 452
VRQ +R
Sbjct: 255 VRQTLARV 262
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 51/74 (68%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + + +LL L+P+E ++R RFG+ED P++L+E+G LS+ER
Sbjct: 287 GHATPEQTLTRDSLHDDLEHLLEELSPREAEVIRSRFGLEDDTPRTLAEIGEAMALSRER 346
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 347 VRQIETRALLKLRQ 360
>gi|126659670|ref|ZP_01730799.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110]
gi|126619015|gb|EAZ89755.1| RNA polymerase sigma factor [Cyanothece sp. CCY0110]
Length = 369
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 47/115 (40%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A EE EL +Q L++ E+ + +L+ + R PT EW +A+G + + LH G
Sbjct: 70 LLNAQEEVELANHVQFLVQAEETRQQLREELQRPPTKAEWGQAMGFETQKQFEHRLHRGR 129
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 130 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 184
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + ++R V +L+ +L +E+ ++ LR+G+ +P +L EVG IF LS+ER
Sbjct: 284 LQLPEELMNEGMLRYEVSAVLSDVLTQREKDVISLRYGLCTAQPHTLEEVGGIFNLSRER 343
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 344 VRQIQSKAMRKLRR 357
>gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis
NIES-39]
Length = 331
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 78/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++++++L Q EPT +WA+ +
Sbjct: 21 TDSVRAYLREIGRVPLLTHEQEIVYGKQVQQATLLQEKRNELAKQLAYEPTEAQWAELVN 80
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 81 LSVAQLQHILHQGQLAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 140
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 141 DPTKGYRFST 150
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 260 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 458 Q 458
+
Sbjct: 320 K 320
>gi|1769413|dbj|BAA13122.1| RpoD2 sigma factor [Microcystis aeruginosa]
Length = 376
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 292 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 351
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 352 RQIQTKAMRKLRR 364
>gi|425469001|ref|ZP_18847970.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9701]
gi|389884193|emb|CCI35494.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9701]
Length = 377
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLNAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALQLDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|159904297|ref|YP_001551641.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9211]
gi|159889473|gb|ABX09687.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9211]
Length = 335
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 80/130 (61%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
ND +R +L LL+ D+E L +Q+L+ LE + QS G++P L E A A G
Sbjct: 25 NDLIRSYLRDIGRVPLLSNDQEITLGRHVQELMALENLEKDWQSTHGQKPNLDELASAAG 84
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ LK + G ++E+++ ANLRLVV +AK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 85 LTVGALKKKFRLGERAKERMVAANLRLVVSIAKKYTKRNMELLDLIQEGTIGLVRGVEKF 144
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 145 DPARGYKFST 154
Score = 44.7 bits (104), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 44/81 (54%), Gaps = 2/81 (2%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P ++ M+ + LL L + ++R+R+GI+ +P SL+ +G + G+S++RVR L
Sbjct: 255 PQQQIELDCMKGDLEILLEKLPELQYRVLRMRYGIDGEEPMSLTGIGRVLGISRDRVRNL 314
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E L L+ G+A Y
Sbjct: 315 ERSGLRGLRSK--GEAVEAYV 333
>gi|422301798|ref|ZP_16389163.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9806]
gi|389789168|emb|CCI14818.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9806]
Length = 377
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLNAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALQLDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>gi|425440636|ref|ZP_18820934.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9717]
gi|389718887|emb|CCH97220.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9717]
Length = 377
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLNAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>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 = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/135 (39%), Positives = 83/135 (61%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 163 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAAQFESDNGREPDTKEW 222
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 223 AALVEMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 282
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 283 AAEKFDHEKGYKFST 297
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 390 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 449
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 450 TRERIRQIEAKALRKLRH 467
>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 = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL DEE +L ++ L E+ + +LQ Q GR PT EWA +GL + + L S L+ G
Sbjct: 66 LLKPDEEIQLAHSVKFLNDAEERRLELQEQLGRSPTNEEWASVLGLETVKQLNSALYKGR 125
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 126 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 180
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 82/326 (25%), Positives = 144/326 (44%), Gaps = 66/326 (20%)
Query: 166 LARKALSASKEAASLAENPK-LNGAEFTDISLTSSLG-----------YPLEEVKQFSQP 213
+AR L E LA + K LN AE + L LG LE VKQ +
Sbjct: 61 MARYPLLKPDEEIQLAHSVKFLNDAEERRLELQEQLGRSPTNEEWASVLGLETVKQLNSA 120
Query: 214 RFLERRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG----------FDRNDPLRL- 259
+ R +K++ + + V+ + Y +R + EG FD N +
Sbjct: 121 LYKGRVAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 180
Query: 260 ---FLWGPE--TRKLLTADEEFEL-IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+ W + TR + L I ++ L +L+K + L+ R PT E A+ +
Sbjct: 181 TYAYWWIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQTLQRNPTEAELAQELD 240
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ +LH R + ++ N R V K G L DLL++
Sbjct: 241 ITA----DQLHQLLQLRRQSLSLNHR----VGK---GEDTELVDLLEDD----------- 278
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLS 432
G+++P+ + + +MRQ + ++L +L +E+ ++ LR+G+ +P +L
Sbjct: 279 -----------GLQLPEERMSEAMMRQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLE 327
Query: 433 EVGNIFGLSKERVRQLESRALYRLKQ 458
EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 328 EVGGMFNLSRERVRQIQSKAMRKLRR 353
>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 = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 51/133 (38%), Positives = 80/133 (60%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ + +S+ G PT EWA
Sbjct: 123 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAIQFESEHGNYPTKKEWA 182
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 183 ALVNMPMARFRRRLMLARRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 242
Query: 370 VEKFKPQAGCRFA 382
EKF + G +F+
Sbjct: 243 AEKFDHEKGYKFS 255
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P++ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 349 FIESDSENPELDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 408
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 409 TRERIRQIEAKALRKLRH 426
>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 = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 81/135 (60%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE++ ++ ++ G P EW
Sbjct: 116 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLELEEKAAEFEADKGHFPDTKEW 175
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 176 AAIFDMPLIKFRRRLMLGRRAKEKMVLSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 235
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 236 AAEKFDHEKGYKFST 250
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 343 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 402
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 403 TRERIRQIEAKALRKLRH 420
>gi|390437727|ref|ZP_10226255.1| RNA polymerase sigma factor rpoD [Microcystis sp. T1-4]
gi|389838859|emb|CCI30379.1| RNA polymerase sigma factor rpoD [Microcystis sp. T1-4]
Length = 378
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLNAEEEIELAYSVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>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 = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 78/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q ++ L +++ + GREP+ EWA+ +
Sbjct: 17 TDMVRTYLHEIGRVPLLTHEQEIIYGKQVQQMMALLQKQEAIAETLGREPSQQEWAEGVQ 76
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS DL L G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 77 LSEADLAKALKQGQRAKQKMIEANLRLVVSIAKKYQKRNLEFLDLIQEGTLGLERGVEKF 136
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 137 DPSRGYKFST 146
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 44/69 (63%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +R + L++ L ++R ++ LRFG+ DG SL++VG LS+ERVRQL
Sbjct: 247 PEQYTAQESLRHDLDGLMSELTQQQRDVLNLRFGLVDGHGLSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLK 457
E +AL L+
Sbjct: 307 ERQALDHLR 315
>gi|260436019|ref|ZP_05789989.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8109]
gi|260413893|gb|EEX07189.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8109]
Length = 335
Score = 100 bits (248), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 52/115 (45%), Positives = 79/115 (68%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q+L+ LE +++L+S+ G +P+ AKA GLS LK +L G
Sbjct: 40 LLTHEQEITLGRQVQELMDLESLEAELESKAGEKPSRDVLAKASGLSSMQLKRKLQHGRR 99
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 154
Score = 48.5 bits (114), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
++P V++ ++ +R+LL L + ++R+R+G++ P SL+ +G I G+S++RVR
Sbjct: 253 DLPSDQVEEDCLKGDLRSLLGQLPHLQEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVR 312
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 313 NLERDGLAGLRR 324
>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 = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 79/134 (58%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL+ LE+ + + G+ P EWA
Sbjct: 86 GVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELADQYEEDHGKYPDNREWA 145
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 146 VLVDMPPIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 205
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 206 AEKFDHEKGYKFST 219
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E PD V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 312 FIEADIENPDQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 371
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 372 TRERIRQIEAKALLKLRH 389
>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 = 99.8 bits (247), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 73/115 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ +EE Q+Q L L++ L GREPTL+EWA+A LS +L+ + G
Sbjct: 24 LLSHEEEILYGKQVQRLTALQEFNQTLAEALGREPTLLEWAEAKELSKSELQRIIREGER 83
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 84 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 138
Score = 58.5 bits (140), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 87/174 (50%), Gaps = 34/174 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR T E A+ +GL+ + + RE L A L L + +
Sbjct: 169 LNKIKKVQRQLTQQLGRSATTGEIAEELGLTPKQI----------RECLERARLPLSLDL 218
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ + L DLL+ +TG D ++Q MR + +
Sbjct: 219 -RVGDNQDTELGDLLE----------------------DTGASPEDYALQSS-MRTDLES 254
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ L P+++ ++ LRFG+EDG+ +LS++G +S+ERVRQ+E AL +L++
Sbjct: 255 IMVDLTPQQKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREALSKLRK 308
>gi|170077819|ref|YP_001734457.1| sigma-70 factor [Synechococcus sp. PCC 7002]
gi|169885488|gb|ACA99201.1| sigma-70 factor [Synechococcus sp. PCC 7002]
Length = 328
Score = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/144 (38%), Positives = 86/144 (59%)
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
K ++++ + G D +R +L LLT +EE Q+Q L+ L++++ L+
Sbjct: 3 KVNLQQAPNNGKSSADMVRTYLREIGRVPLLTHEEEIVYGKQVQRLMALQEKRQTLEESL 62
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
RE T EWA+A L+ + L+ +L G ++ K+I ANLRLVV +AK+YQ R + DL+
Sbjct: 63 DREATREEWAEAAQLTPKQLQRDLQIGERAKRKMIEANLRLVVAIAKKYQKRNLEFLDLI 122
Query: 360 QEGSMGLMKSVEKFKPQAGCRFAN 383
QEGS+GL + VEKF P G +F+
Sbjct: 123 QEGSLGLERGVEKFDPTKGYKFST 146
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 52/72 (72%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD +V +L++Q +R+L+ L P+++ ++ LRFG+ DGK SL+++G LS+ERVR
Sbjct: 245 ESPDNNVTYELLKQDLRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVR 304
Query: 447 QLESRALYRLKQ 458
QLE +AL L++
Sbjct: 305 QLERQALNHLRR 316
>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 = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/143 (38%), Positives = 84/143 (58%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+ K K ++ D +R +L +LT ++E Q+Q ++ L+++K L +
Sbjct: 4 ANAKPKAAKSTFTADMVRTYLHEIGRVPMLTHEQEIIYGKQVQQMMALQEKKEALAKKLN 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
REPT E A LS +LK +H G +++K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 REPTDAELASHTNLSEDELKGIMHRGRRAKQKMIEANLRLVVSIAKKYQKRNLEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG+MGL + VEKF P G +F+
Sbjct: 124 EGTMGLERGVEKFDPMRGYKFST 146
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+I + ++ +RQ + LL L P++R ++ LRFG+EDG SL++VG +S+ERVRQL
Sbjct: 247 PEIFMAQESLRQDLETLLADLTPQQREVISLRFGLEDGHELSLAKVGERMNISRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 ERQALDHLRR 316
>gi|17158744|ref|NP_478255.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
gi|17134693|dbj|BAB77251.1| group 2 sigma 70-type sigma factor [Nostoc sp. PCC 7120]
Length = 323
Score = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 53/132 (40%), Positives = 79/132 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q ++ L+K+K L+ Q EP+ E AK +
Sbjct: 12 TDIVRNYLQDIVRVPLLTHEEEIVYSKQVQQMMVLQKKKETLKKQLNHEPSQKELAKYVQ 71
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS ++K G +++K++ ANLRLVV +AK+YQ R + L DL+QEGS+GL + VEKF
Sbjct: 72 LSEIEVKDIFQQGTQAKQKMMVANLRLVVAIAKKYQRRNLELMDLIQEGSLGLERGVEKF 131
Query: 374 KPQAGCRFANTG 385
P G +F+
Sbjct: 132 DPTRGYKFSTYA 143
Score = 48.9 bits (115), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 46/81 (56%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+I V + LMRQ + L L P+++ ++ L +G+ED +L++V +S+ RVR L
Sbjct: 243 PEIQVTQNLMRQDIYLSLRELTPQQQQVLILHYGLEDNYELTLTQVAQHLNISERRVRYL 302
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL L++ Y ++
Sbjct: 303 EKQALSYLRRCQTNLREYIFS 323
>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 = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 51/126 (40%), Positives = 77/126 (61%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC 316
+R++L LLT+D+E Q+Q +I +E+ K +L Q REPTL E A + S
Sbjct: 2 VRVYLQEIGQFPLLTSDQEITYGRQVQQMIAIEEHKQQLSQQLHREPTLAELADFVNKSE 61
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
++ L G +++K+I ANLRLVV VAK+YQ R + DL+QEG++GL + +EKF P
Sbjct: 62 TEVNQILQQGQRAKQKMITANLRLVVSVAKKYQHRNLEFLDLVQEGAIGLQRGIEKFDPN 121
Query: 377 AGCRFA 382
G + +
Sbjct: 122 RGYKLS 127
Score = 56.2 bits (134), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 48/69 (69%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++L+RQ + +LL L P +R ++ LRFG+ D + +SL+++G +S+ERVRQ+
Sbjct: 229 PNEQITQELLRQDLSDLLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQI 288
Query: 449 ESRALYRLK 457
+ +A+ L+
Sbjct: 289 QQQAMTALR 297
>gi|425452501|ref|ZP_18832318.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 7941]
gi|425460781|ref|ZP_18840262.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9808]
gi|443669300|ref|ZP_21134532.1| RNA polymerase sigma factor rpoD2 domain protein [Microcystis
aeruginosa DIANCHI905]
gi|159029420|emb|CAO90796.1| unnamed protein product [Microcystis aeruginosa PCC 7806]
gi|389765706|emb|CCI08495.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 7941]
gi|389826523|emb|CCI22935.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa PCC 9808]
gi|443330428|gb|ELS45144.1| RNA polymerase sigma factor rpoD2 domain protein [Microcystis
aeruginosa DIANCHI905]
Length = 377
Score = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL+A+EE EL ++ L+ E+ + KLQ R PT EWA A+ L R L++ L+ G
Sbjct: 78 LLSAEEEIELAYLVKFLMEAEEVRQKLQENLHRPPTKTEWAIALELDNERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 192
Score = 59.7 bits (143), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERV
Sbjct: 293 QLPEDKMNEMMMRQEIFAVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLSRERV 352
Query: 446 RQLESRALYRLKQ 458
RQ++++A+ +L++
Sbjct: 353 RQIQTKAMRKLRR 365
>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 = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 80/135 (59%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ + + + G P EW
Sbjct: 144 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKISDLLYLEELAGQFEGRKGYYPDNKEW 203
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + +S + L G ++ K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 204 AALVEMSLIKFRRRLMLGRRAKAKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 263
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 264 AAEKFDHEKGYKFST 278
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 371 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 430
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 431 TRERIRQIEAKALRKLRH 448
>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 = 99.8 bits (247), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 67/223 (30%), Positives = 119/223 (53%), Gaps = 5/223 (2%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT D+E +Q ++ +E+++S L Q R+PT +E A ++G
Sbjct: 7 DSVRSYLKEIGRYPLLTPDQEITNARLVQQMMAVEEQRSNLALQLNRQPTDLELATSLGQ 66
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L+S + G +++K++ ANLRLVV VAK+YQ + DLLQEG++GL + +EKF
Sbjct: 67 NEAELQSVIQQGQKAKQKMVTANLRLVVSVAKKYQNYSLDFLDLLQEGALGLQRGIEKFD 126
Query: 375 PQAGCRFANTGVEIPDISVQKQLM-RQHVRNLLTLLNPKERCIVRLRFGIED--GKPKSL 431
P G + + S+ + + + L +N K I R++ + G+P +
Sbjct: 127 PNKGYKLSTYVYWWITQSITRAVADKSRTIRLPIHINEKLNKIRRVQQQLSQSLGRPPVV 186
Query: 432 SEVGNIFGLSKERVRQL--ESRALYRLKQSLGGKASYGYADLL 472
+E+ LS ++R+ S+ L L++ +G + AD+L
Sbjct: 187 AEIAESLNLSPNQIREYLQISKPLVSLEKRVGDEGESELADIL 229
>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 = 99.4 bits (246), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 55/144 (38%), Positives = 86/144 (59%), Gaps = 2/144 (1%)
Query: 241 ASVKKKLSEGFDR--NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
++VKK+ G + D +R +L LL ++E Q+Q ++ L + K L +
Sbjct: 2 STVKKESDNGKTKLTADMVRTYLREIGRVPLLNREQEIIYGKQVQQMMILVEAKEALAKE 61
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
G EP+L EWA + S DLK ++ +G +++K+I ANLRLVV +AK+YQ R + DL
Sbjct: 62 LGYEPSLSEWAIYVNQSENDLKHKISTGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDL 121
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFA 382
+QEG++GL + VEKF P G +F+
Sbjct: 122 IQEGTLGLERGVEKFDPTMGYKFS 145
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +R + NLL L P++R +V LRFG+EDG SL++VG+ +S+ERVRQL
Sbjct: 247 PEHYTTQEFLRHDLNNLLAELTPQQREVVTLRFGLEDGNEMSLAKVGDRLNISRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 EHQALTHLRR 316
>gi|67925121|ref|ZP_00518496.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|67853040|gb|EAM48424.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
Length = 374
Score = 99.4 bits (246), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL A+EE EL Q+Q L+ +E+ K +L+ + R P+ E A+A+G + + + LH G
Sbjct: 75 LLNAEEEVELAQQVQFLLEVEETKQRLKEELQRTPSKAECAEALGFETAKQFEHRLHKGR 134
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 135 IAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 189
Score = 55.1 bits (131), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + +++ V +L+ +L +E+ ++ LR+G+ +P +L EVG IF LS+ER
Sbjct: 289 LQLPEELMNEGMLQYEVSAVLSDVLTQREKDVISLRYGLCTSQPHTLEEVGGIFNLSRER 348
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 349 VRQIQSKAMRKLRR 362
>gi|428203773|ref|YP_007082362.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427981205|gb|AFY78805.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 375
Score = 99.4 bits (246), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 76/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LL +EE EL ++ L+ E+ + +LQ F R PT EWA+A+ ++ R L++ L+ G
Sbjct: 76 LLKPEEEIELAHSVKFLVDAEETRRQLQEAFKRPPTKAEWAQALKMANERQLENRLYRGR 135
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 136 CAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFS 190
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 58/87 (66%), Gaps = 1/87 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+ +++P+ + + ++RQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS
Sbjct: 287 DNDLQLPEEKMSEAMLRQEISEVLSDVLTEREKDVISLRYGLATSQPYTLEEVGGMFNLS 346
Query: 442 KERVRQLESRALYRLKQSLGGKASYGY 468
+ERVRQ++S+A+ +L++ + G+
Sbjct: 347 RERVRQIQSKAMRKLRRPQVARRLKGW 373
>gi|427733998|ref|YP_007053542.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427369039|gb|AFY52995.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 322
Score = 99.4 bits (246), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 71/115 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+ L+ K L ++F R+PTL EWA+ L +DL+ + G
Sbjct: 27 LLTHEEEILFGKQVHRATVLQSLKESLTNEFNRQPTLDEWAERAKLEPQDLEEAIEKGEV 86
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF+
Sbjct: 87 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFST 141
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V + + + +L+ L P++R ++ LRFG+ DGK +L ++G +S+ERVRQ+
Sbjct: 242 PEDFVMQSSLSYELESLIADLTPQQRQVITLRFGLNDGKAMTLVKIGEQLNISRERVRQI 301
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L+++ G Y
Sbjct: 302 EREALNKLRKAKGDMNEY 319
>gi|359458359|ref|ZP_09246922.1| RNA polymerase sigma-70 factor [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 68/115 (59%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL +EE Q+Q I L+ K LQ+ REPTL EWA LS L+ EL G+
Sbjct: 23 LLNHEEEIIFGKQVQRFIALQDLKQDLQADLDREPTLTEWADKAELSISQLQKELKLGHK 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ K++ +NLRLVV +AK+Y + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFST 137
Score = 46.2 bits (108), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 50/221 (22%), Positives = 96/221 (43%), Gaps = 44/221 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP++ + W + TR + + L I + L +L K + +L
Sbjct: 120 LQRGVEKFDPMKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R+PT+ E A + L+ + ++ L+ S + L + + Q + L
Sbjct: 180 QKLHRDPTIQELAVEMDLTPKKIEDYLNYARRS--------ISLDIQIGDQ---QNTELW 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
+LL++ + E PD +R + LL L+P++R +
Sbjct: 229 ELLEDPN-----------------------ESPDTYATASSLRSDLAKLLQDLSPQQREV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ LR+G+ D P +L++VG +S+E VR++E A L+
Sbjct: 266 ITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFKILR 306
>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 = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 55/175 (31%), Positives = 100/175 (57%), Gaps = 5/175 (2%)
Query: 213 PRFLERRSKKRKVSKPQVT--NHETYNSRKASVKKKLSEGFDR---NDPLRLFLWGPETR 267
P F + + + +P +T E +S+ A + S G+ + +D + F
Sbjct: 18 PEFFNNDNLELETEEPDLTLVEVEFSDSKNALTTSRRSSGYSKTSSDDTVGAFFKEMARY 77
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL +EE +L +Q L+ +++ + +LQ+ GR+P E A+ + ++ R L++ L+ G
Sbjct: 78 PLLKPEEEVDLAKNVQFLVEIDQLQERLQANLGRKPAKAELAQQLNMTERQLENRLYRGR 137
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P+ G +F+
Sbjct: 138 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPEKGYKFS 192
Score = 60.1 bits (144), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 26/74 (35%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+ +P+ + + +MRQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ER
Sbjct: 292 LRLPEEQMSETMMRQEIWEVLSDVLTEREKDVISLRYGLASSEPYTLEEVGGMFNLSRER 351
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 352 VRQIQSKAMRKLRR 365
>gi|354566206|ref|ZP_08985379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353546714|gb|EHC16162.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 318
Score = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 74/130 (56%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q GREPTL EWA A
Sbjct: 8 TDLVRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVRELLATQLGREPTLEEWATATQ 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L + ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 68 LELTELNQAIADAEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 58.2 bits (139), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 46/184 (25%), Positives = 86/184 (46%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L + GR P++ E A+ + L+ R ++ L L L +
Sbjct: 166 EKLNKIKKAQRQLSQRLGRAPSVAELAQELELTSRQVREYLEKAR--------VPLSLDI 217
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ Y L ++L++ P A P+ V + + +
Sbjct: 218 RLGDNYD---TELGEMLED-------------PGAS----------PEEFVTQSSLSGDL 251
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L P++R ++ LRFG+ DG +L+++G I +S+ERVRQ+E AL +L++S G
Sbjct: 252 ERLMAELTPQQREVISLRFGLNDGHALTLAKIGEILNISRERVRQIEREALSKLRKSKLG 311
Query: 463 KASY 466
Y
Sbjct: 312 INEY 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 = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 51/134 (38%), Positives = 84/134 (62%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D +R++L +LL DEE EL +I DL++LE+ ++ +S+ G P++ EWA
Sbjct: 81 GIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWA 140
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++
Sbjct: 141 ELTDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRA 200
Query: 370 VEKFKPQAGCRFAN 383
EKF + G +F+
Sbjct: 201 AEKFDHEKGYKFST 214
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +
Sbjct: 307 FIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDV 366
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 367 TRERIRQIEAKALRKLR 383
>gi|124021877|ref|YP_001016184.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
gi|123962163|gb|ABM76919.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
Length = 350
Score = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 106/192 (55%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+L+ LE+ +S+L+ + G + E AKA GLS LK +L G
Sbjct: 55 LLSHEQEITLGRQVQELMSLEQLESELEGKTGAPASRKELAKAAGLSELQLKKKLQIGRR 114
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 115 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 174
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R E G+ ++SE+ L
Sbjct: 175 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQEMGRTPTVSELAEFVEL 229
Query: 441 SKERVRQLESRA 452
+E V+ L RA
Sbjct: 230 PEEEVKDLMCRA 241
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 42/70 (60%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V+ M+ +R LL L + ++R+R+GI+ G+P +L+ +G I +S++RVR L
Sbjct: 270 PSEKVEVDCMKGDLRTLLEKLPELQGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNL 329
Query: 449 ESRALYRLKQ 458
E L L+Q
Sbjct: 330 ERHGLNGLRQ 339
>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 = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 64/177 (36%), Positives = 95/177 (53%), Gaps = 8/177 (4%)
Query: 261 LWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
LW R LLTA EE L ++ + +LEK + L Q GR+PT EWA A G+ ++
Sbjct: 326 LWDKLDRGLLTAVEENRLAVFMKPMKKLEKLQKVLMKQLGRDPTDEEWAAAAGVDLLIMR 385
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISL--HDLLQEGSMGLMKSVEKFKPQAG 378
L G ++R KLI NLRLV+ A +Y +SL DL QEG +GLM++V+KF P G
Sbjct: 386 RRLALGRAARTKLIQRNLRLVLSQAYKYHKDSMSLSIQDLCQEGVIGLMQAVDKFDPGKG 445
Query: 379 CRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
RF+ G+ ++ ++R ++ L +P + R I+ K + SE+G
Sbjct: 446 YRFSTYGI----YWIRNSILRAQTKSGHMLRSPHN--VSTHRVNIQRAKVELFSELG 496
Score = 49.7 bits (117), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 78/174 (44%), Gaps = 36/174 (20%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV-VHV 344
+ +++ K +L S+ GR+PT E K +G++ + ++ N+R +H
Sbjct: 482 VNIQRAKVELFSELGRQPTNDEIRKHLGITADRFRD-----------ILRTNMRTSSLHE 530
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ GR + + +E ++ + G G++ +
Sbjct: 531 HDRITGREKVENLVSEEDALDTLA--------GGTSMVQYGLD----------------D 566
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+L L PKE ++R RFG++ +SLSEVG I LS+E VR+ E R + +L+
Sbjct: 567 VLDSLRPKENLVLRQRFGLDGKGQRSLSEVGLILNLSREMVRRYELRGILKLQH 620
>gi|359457298|ref|ZP_09245861.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 327
Score = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 76/130 (58%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q ++ L + + GREP+ EWA
Sbjct: 17 TDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTEMDELGREPSSEEWAAKAN 76
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS L+ LH G +++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF
Sbjct: 77 LSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKF 136
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 137 DPTRGYKFST 146
Score = 58.5 bits (140), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 44/69 (63%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R V LL L P++R ++ LRFG+ +GK SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLR 315
Query: 458 QSLGGKASY 466
+ G Y
Sbjct: 316 RRKGEVREY 324
>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 = 99.4 bits (246), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 77/115 (66%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL +EE EL ++ +++ E+ + +L+ Q R+PT EW KA+ L S R L++ L+ G
Sbjct: 69 LLKPEEEVELANCVKVMVQAEEIRQQLKEQLNRQPTKEEWTKALQLESIRQLENRLYRGR 128
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 129 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFS 183
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 50/193 (25%), Positives = 95/193 (49%), Gaps = 34/193 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + L+ Q R P E A + +S S+LH R + ++ N
Sbjct: 209 IHIVEKLNKLKKAQRNLKQQLQRNPNEQELANELNVSL----SQLHQLLELRRQSLSLNH 264
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R V K L DLL++ + ++P+ + + +M
Sbjct: 265 R----VGK---AEDTELVDLLEDSEL----------------------QLPEERMSEAMM 295
Query: 399 RQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
RQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L+
Sbjct: 296 RQEIFTVLSDVLTEREKDVISLRYGLATNQPYTLEEVGGMFNLSRERVRQIQSKAMRKLR 355
Query: 458 QSLGGKASYGYAD 470
+ + G+ +
Sbjct: 356 RPQVARRLKGWLN 368
>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 = 99.0 bits (245), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L Q REPT EWA + +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIIYGKQVQQMMSLLEAKEALAKQLHREPTSDEWATQVDI 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L + G +++K+I ANLRLVV +AK+YQ R + DL+QEG+MGL + VEKF
Sbjct: 78 AAAELPETIKRGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++ +RQ + NLL L P++R +V LRFG+ DG SL++VG LS+ERVRQL
Sbjct: 247 PDHFMTQEALRQDIDNLLAELTPQQRSVVSLRFGLVDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 EHQALAHLRR 316
>gi|443317112|ref|ZP_21046533.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783319|gb|ELR93238.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 327
Score = 99.0 bits (245), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 77/129 (59%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E L Q+Q + L K++++ G++P+ EWA A L
Sbjct: 18 DAVRTYLHEIGRVPLLTHEQEIVLGKQVQQFMTLLDLKTQMKESLGQDPSDQEWAGAAHL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
L +LH G ++ ++I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 DTATLTQQLHEGEQAKRQMIEANLRLVVAIAKKYQKRNLEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMKGYKFST 146
Score = 60.1 bits (144), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 51/77 (66%), Gaps = 1/77 (1%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
D +V++ L +Q ++ LL L P+++ ++ LR+G+ DG SL++VGN +S+ERVRQLE
Sbjct: 249 DFTVRESL-KQDIQTLLAELTPQQQEVITLRYGLNDGNELSLAKVGNRLNISRERVRQLE 307
Query: 450 SRALYRLKQSLGGKASY 466
+AL L++ +Y
Sbjct: 308 QQALKHLRRRKANVRAY 324
>gi|427709274|ref|YP_007051651.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427361779|gb|AFY44501.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 377
Score = 99.0 bits (245), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 77/115 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + + ++ LQ Q G++PT ++ A + L+ + L+S L+ G
Sbjct: 79 LLKADEEVELARRVRFLEEVREIQAALQEQLGQQPTKVQVAAQLDLTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFST 193
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 295 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 354
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 355 IQSKAMRKLRRPHIAKRLKGW 375
>gi|443327806|ref|ZP_21056414.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442792535|gb|ELS02014.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 375
Score = 99.0 bits (245), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN 327
LL DEE L +++ ++ E + L Q R P+ EWA+AIGLS R+L+ L+ G
Sbjct: 76 LLNTDEEVVLANEVKLMVEAEAIRQDLIEQLDRNPSREEWAQAIGLSSTRELEKFLYRGK 135
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 136 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFS 190
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 53/73 (72%), Gaps = 1/73 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
++P+ + + +MRQ + ++L +L +E+ ++ LR+G+ +P +L EVG +F +S+ERV
Sbjct: 291 QLPEEKMSEAMMRQEITDVLDDVLTQREKDVISLRYGLFTSQPYTLEEVGGMFNISRERV 350
Query: 446 RQLESRALYRLKQ 458
RQ++S+A+ +L++
Sbjct: 351 RQIQSKAMRKLRR 363
>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 = 99.0 bits (245), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 51/128 (39%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE Q+Q +++ +EK KL + EP+ EWA + L
Sbjct: 24 DTVRTYLHEIGRVPLLTQEEEIHYGKQVQQMMKQLEEKDKLTKKLEHEPSKTEWANEVEL 83
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L L G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 84 TEDELDRILDCGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 143
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 144 PMRGYKFS 151
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 51/69 (73%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
D V +L+RQ +++L+ L P++R ++ LR+G+EDGK SLS+VG +S+ERVRQLE
Sbjct: 254 DNYVTHELLRQDLKSLIDELTPQQREVILLRYGLEDGKELSLSKVGARMSISRERVRQLE 313
Query: 450 SRALYRLKQ 458
++AL L++
Sbjct: 314 NQALNHLRR 322
>gi|443320707|ref|ZP_21049791.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442789590|gb|ELR99239.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 318
Score = 99.0 bits (245), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 60/192 (31%), Positives = 103/192 (53%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE ++Q L+ LEK K +L+ + E + EWAKA ++ L+ ++ +G
Sbjct: 23 LLTHEEEIIYAKRVQKLVELEKCKHQLEEKTKTELSEAEWAKAANVTVAKLRKDVDAGEV 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMIEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
++ + + + H+ L + +R I + + G+ +++E+ L
Sbjct: 143 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQIAQ-----QKGRSATIAELAEELEL 197
Query: 441 SKERVRQLESRA 452
+ +VR+ RA
Sbjct: 198 TPRQVREYLERA 209
Score = 59.3 bits (142), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 43/62 (69%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L P++R ++ LRFG+ DGKP +LS++G + +S+ERVRQ+E AL +L++ +
Sbjct: 254 LMDDLTPQQREVISLRFGLTDGKPLTLSKIGVLLNISRERVRQIEREALAKLRKRKSDMS 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>gi|186681941|ref|YP_001865137.1| RpoD family RNA polymerase sigma factor [Nostoc punctiforme PCC
73102]
gi|186464393|gb|ACC80194.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 339
Score = 99.0 bits (245), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 68/219 (31%), Positives = 114/219 (52%), Gaps = 11/219 (5%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R +L LLT ++E Q+Q ++ L K +L + EPTL EWA +
Sbjct: 29 DDIVRSYLQEIGRVDLLTREQEVIFAQQVQLMMNLLAAKEELAVKLDHEPTLQEWADRVE 88
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L L+ +L G+ +++K+I ANLRLVV VAK+YQ R + DL+QEG++GL + V+KF
Sbjct: 89 LGAEVLELQLSQGHQAKQKMIQANLRLVVAVAKKYQHRNLEFMDLIQEGTLGLERGVDKF 148
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVRLRFGIEDGKP 428
P G +F+ + + + +Q +R ++ LN +R V+ + G+
Sbjct: 149 DPALGYKFSTYAYWWIRQGITRAIAQQGRTIRLPIHVFEKLNKIKR--VQRELSQQLGRV 206
Query: 429 KSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYG 467
+ +E+ N L+ +VR+ LY +Q +A G
Sbjct: 207 PTTAEIANALSLTPSQVRE----CLYLARQPFSLEARVG 241
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 50/173 (28%), Positives = 86/173 (49%), Gaps = 34/173 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L ++++ + +L Q GR PT E A A+ L+ ++ L+ L L V
Sbjct: 189 LNKIKRVQRELSQQLGRVPTTAEIANALSLTPSQVRECLY--------LARQPFSLEARV 240
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+Q + L D+L+ + G D +V++ L Q +++
Sbjct: 241 GEQ---QDTELQDILE----------------------DDGPSPEDYAVEESL-HQDLQD 274
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
LL L+P++R I+ LRFG+ DG SL+++G+ G+S+ERVRQ+E +AL L+
Sbjct: 275 LLAKLSPQQREILTLRFGLTDGYELSLAQIGDRMGISRERVRQIEQKALSLLR 327
>gi|434395299|ref|YP_007130246.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
gi|428267140|gb|AFZ33086.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Gloeocapsa sp.
PCC 7428]
Length = 318
Score = 98.6 bits (244), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 76/130 (58%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L++ K L +Q REPTL EWA + G
Sbjct: 8 TDLVRTYLREIGRVPLLTHEQEILYGKQVQRSTALQEIKESLSAQLNREPTLEEWAASAG 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L + G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LESAELSKAIALGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 51/81 (62%), Gaps = 1/81 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TGV PD V + M + ++ L P++R ++ LRFG+ DG+ +L+++G+
Sbjct: 228 GELLEDTGVS-PDDFVLQSCMSTDIERMMADLTPQQREVLSLRFGLVDGQSMTLAKIGDR 286
Query: 438 FGLSKERVRQLESRALYRLKQ 458
+S+ERVRQ+E AL +L++
Sbjct: 287 LNISRERVRQIEREALTKLRK 307
>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 = 98.6 bits (244), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 77/129 (59%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVFGKQVQQMMTLVEAKEALAKKLHREPSLPEWANHVKQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S D+K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETDVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + LL L P++R +V LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|427712306|ref|YP_007060930.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
gi|427376435|gb|AFY60387.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 6312]
Length = 318
Score = 98.6 bits (244), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 72/115 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L L + ++ L++ GREP+L EWA LS +L + G
Sbjct: 23 LLTHEQEILYGKQVQMLASLNETRTGLETALGREPSLEEWASQANLSPGELNEIIQGGER 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 48/69 (69%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + L+ L P++R ++ LRFG+EDG+P +L++VG++ +S+ERVRQ+E AL +L+
Sbjct: 247 LRADLDRLMADLTPQQRQVIALRFGLEDGQPLTLAKVGDLLNISRERVRQIEREALGKLR 306
Query: 458 QSLGGKASY 466
+ G Y
Sbjct: 307 KRRGDIHEY 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 = 98.6 bits (244), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 55/144 (38%), Positives = 86/144 (59%), Gaps = 2/144 (1%)
Query: 241 ASVKKKLSEGFDR--NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
++VKK+ G + D +R +L LL ++E Q+Q ++ L + K L +
Sbjct: 2 STVKKESDNGKTKLTADMVRTYLREIGRVPLLNREQEIIYGKQVQQMMLLLEVKEALTKE 61
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
G EP+L EWA + S DLK ++ +G +++K+I ANLRLVV +AK+YQ R + DL
Sbjct: 62 LGYEPSLSEWAIYVNQSENDLKHKISTGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDL 121
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFA 382
+QEG++GL + VEKF P G +F+
Sbjct: 122 IQEGTLGLERGVEKFDPTMGYKFS 145
Score = 63.9 bits (154), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +R + NLL L P++R +V LRFG+EDG SL++VG+ +S+ERVRQL
Sbjct: 247 PEHYTTQEFLRHDLNNLLAELTPQQREVVILRFGLEDGNEMSLAKVGDRLNISRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 EHQALTHLRR 316
>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 = 98.6 bits (244), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ + K L + REPT+ EWA + +
Sbjct: 19 DMVRTYLREIGRVPLLTREQEIIYGKQVQQMMSVLDAKEALAKKLHREPTVQEWASHVKM 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S DL + G +++K+I ANLRLVV +AK+YQ R + DL+QEG+MGL + VEKF
Sbjct: 79 SEADLHDTVRRGQRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFD 138
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 139 PTRGYKFST 147
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/78 (39%), Positives = 50/78 (64%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ +RQ + +L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 248 PEHYMTQESLRQDLDHLMAELTPQQREVLNLRFGLEDGNELSLAKVGERLNLSRERVRQL 307
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 308 EHQALAHLRRRRANVQEY 325
>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 = 98.6 bits (244), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q L + + + KL ++ REPT EWA A +
Sbjct: 6 DLVRTYLREIGRVPLLTHEQEVIYGKQVQQLAAMNEIREKLAAELNREPTRAEWAAAANI 65
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L++ + +G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 66 SEGELETIIENGERAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFD 125
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 126 PTKGYRFST 134
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 51/78 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + L+R + L+ L P++R ++ LRFG+E+G+P +L++VG + +S+ERVRQ+
Sbjct: 235 PEEFATQSLLRSDLERLMAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRERVRQI 294
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L++ G Y
Sbjct: 295 EREALSKLRKRRGDIHEY 312
>gi|407327705|dbj|BAM45410.1| sigma factor 5 [Marchantia polymorpha]
Length = 635
Score = 98.6 bits (244), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 65/196 (33%), Positives = 102/196 (52%), Gaps = 13/196 (6%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
W +R LL+A+EE+ L + ++ +LEK + + GR+P+ EWAKA L LK
Sbjct: 328 WDSLSRDLLSAEEEYSLASLMKPAKKLEKTFKAIGEELGRDPSDEEWAKAAQLDVHTLKR 387
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQYQ--GRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++ G ++R KLI NLRLV+ A +YQ +SL DL QEG GL+ V+KF P+ G
Sbjct: 388 QVLLGRAARNKLIQHNLRLVLFQAHKYQKDNSSLSLFDLCQEGVSGLLHGVDKFDPKRGH 447
Query: 380 RFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI-------VRLRFGIEDGKPKSLS 432
RF+ V V+ ++R R+ L +P + RL +E + + +
Sbjct: 448 RFSTYAV----YWVRNSILRAMTRSGSVLRSPYNVAMHKWNIKRARLDLLVELERAATDA 503
Query: 433 EVGNIFGLSKERVRQL 448
EV G++ +R R +
Sbjct: 504 EVMERLGIAPDRFRDI 519
Score = 42.4 bits (98), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 35/57 (61%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ ++L L PKE ++ RFG++ ++LSE+G LS+E VR+ E+ L ++K
Sbjct: 564 IDDVLDSLKPKESFVLSQRFGLDGKGERTLSEIGKNMNLSREMVRRYEACGLLKMKH 620
>gi|397614537|gb|EJK62861.1| hypothetical protein THAOC_16512 [Thalassiosira oceanica]
Length = 466
Score = 98.6 bits (244), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 57/168 (33%), Positives = 95/168 (56%), Gaps = 6/168 (3%)
Query: 219 RSKKRKVSKPQVTNHETYNSRKASVKKKLSE-GFDRNDPLRLFLWGPETRKLLTADEEFE 277
R+ K + +KP +N E +K + E GFD + ++ +LL +EE
Sbjct: 114 RAIKSRATKPGNSNGEPPKPVSRKIKASVRETGFDS---MHYYMKTMGNHELLQKNEEII 170
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG--LSCRDLKSELHSGNSSREKLIN 335
L +IQ LI E ++ +L+++ R PT EWA +I ++ LK ++ ++ L
Sbjct: 171 LAREIQILIGWEGKRDELEAELVRPPTYQEWAASIDPEMTVIQLKRQIRRSLRAKAALTE 230
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLV+ +AK+YQ RG+++ DL QEG++GL ++ EKF P+ G RF+
Sbjct: 231 SNLRLVISIAKRYQNRGLNMQDLCQEGTLGLTRACEKFDPEKGFRFST 278
Score = 72.4 bits (176), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 51/65 (78%)
Query: 394 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
Q ++++ + L+ LN +E+ ++RLRFG++DG PK+L E+G F +++ER+RQ+E+RAL
Sbjct: 388 QYRMLQDDLSRLIRTLNAREQAVIRLRFGLDDGTPKTLEEIGRKFSVTRERIRQIEARAL 447
Query: 454 YRLKQ 458
++L+Q
Sbjct: 448 HKLRQ 452
>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 = 98.2 bits (243), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 75/115 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L+ +E+ + LQ Q R+P E +G+S + L+ +L+ G
Sbjct: 102 LLKADEEVELARRVRFLVEVEETQRGLQKQLKRQPNREELIAELGISDKQLEHQLYLGRV 161
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 162 AKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRATEKFDPDKGYKFST 216
Score = 62.4 bits (150), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + ++L +L P+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ
Sbjct: 318 PEQQMSETMMRQEIWDVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQ 377
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 378 IQSKAMRKLRRPHIAKRLKGW 398
>gi|427717250|ref|YP_007065244.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
7507]
gi|427349686|gb|AFY32410.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
7507]
Length = 318
Score = 98.2 bits (243), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 74/130 (56%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q GR+PTL EWA
Sbjct: 8 TDLVRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEAREYLAAQLGRQPTLEEWATTAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L + G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 68 LESTELNDIIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 55.1 bits (131), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 41/62 (66%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L+ L P+++ ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L++S
Sbjct: 254 LMGELTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLRKSKANMG 313
Query: 465 SY 466
Y
Sbjct: 314 EY 315
>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 = 98.2 bits (243), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 51/128 (39%), Positives = 78/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L +K KL+ + G+E +L EWA + L
Sbjct: 18 DLVRTYLHEIGRVPLLTHEQEIVYGKQVQKMMTLLTKKEKLEHKLGKELSLKEWANQVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L + G ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEK+
Sbjct: 78 SEAELDRAIKQGQRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKYD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PTKGYKFS 145
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD ++L+RQ + +L+ L P++R ++ LRFG+EDGK SL+++G LS+ERVRQL
Sbjct: 247 PDNYATQELLRQDLLHLMADLTPQQREVIALRFGLEDGKELSLAKIGQRMNLSRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL +L++
Sbjct: 307 EHQALAQLRR 316
>gi|299115565|emb|CBN75768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ectocarpus
siliculosus]
Length = 244
Score = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 78/116 (67%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
KLLT EE+EL +IQ L+ + +L + GR PT EWA++ ++ +L+ L G
Sbjct: 21 KLLTRAEEYELGTKIQTLMGHVGARQELAAGLGRAPTFSEWAESRRMTVVELEESLKVGG 80
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++++ ++ AN+R+V+ +A++YQ G+ L DL+QEGS+GL+++VEKF P+ G + +
Sbjct: 81 AAKKTMVEANMRMVISIARKYQHLGVPLTDLIQEGSLGLVRAVEKFDPERGFKLST 136
>gi|427735326|ref|YP_007054870.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427370367|gb|AFY54323.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 332
Score = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 49/114 (42%), Positives = 76/114 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT++EE L Q+Q I L K +L + R+PTL EW+ L+ +L +++ G
Sbjct: 35 LLTSEEEIFLAKQVQQRISLLALKEELSEKLQRQPTLQEWSVKAQLNDSELLEQINQGQI 94
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++K+I ANLRLVV +AK+YQ R + DL+QEG++GL ++V+KFKP G +F+
Sbjct: 95 AKQKMIAANLRLVVTIAKKYQKRNLDFPDLIQEGTLGLERAVDKFKPSLGYKFS 148
Score = 41.6 bits (96), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 54/243 (22%), Positives = 105/243 (43%), Gaps = 35/243 (14%)
Query: 216 LERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEE 275
+ ++ +KR + P + T +A K K S G+ + ++ TR +
Sbjct: 110 IAKKYQKRNLDFPDLIQEGTLGLERAVDKFKPSLGYKFSTYAYWWIRQGITRAISQQSRT 169
Query: 276 FELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
L I + L ++++ + +L + GR PT+ E A+A+G ++ L +L
Sbjct: 170 IRLPIHITEKLNKIKRVQRELSQKLGRNPTVTEIAEALGFKPSQIRECL--------RLA 221
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
+ L V V + + L DLL S P V
Sbjct: 222 RKPMSLDVKVGTE---QNTQLQDLLVSESYS-----------------------PFDYVV 255
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
K+ ++Q V++LL+ L+P+++ I+ LRFG+ + +L ++ G+ ++RV L+ +A
Sbjct: 256 KESLKQTVQDLLSKLSPQQQEILTLRFGLTGEEELTLKQISQRTGICQDRVLLLQRQAFT 315
Query: 455 RLK 457
L+
Sbjct: 316 FLR 318
>gi|427731958|ref|YP_007078195.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427367877|gb|AFY50598.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 318
Score = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 51/115 (44%), Positives = 71/115 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q L++ + L S+ R+PTL EWAKA L +L + G
Sbjct: 23 LLTHEEEIFYGKQVQRSSSLQEVREDLASKLDRQPTLEEWAKAAELDIAELNEAIADGEF 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 137
Score = 58.9 bits (141), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V + + + L+ L P++R +++LRFG+ DG+ +L+++G I +S+ERVRQ+
Sbjct: 238 PEEFVMQSSLSYDLERLMEQLTPQQREVIKLRFGLMDGQALTLAKIGEILNISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L++S Y
Sbjct: 298 EREALTKLRKSKASMDEY 315
>gi|218245053|ref|YP_002370424.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8801]
gi|218165531|gb|ACK64268.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8801]
Length = 375
Score = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 47/115 (40%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL A EE EL +Q L+ E+++ +L + PT +WA+A+G S R ++ L+ G
Sbjct: 76 LLEAQEEIELAYSVQFLVEAEQKRQQLLEELQHPPTKAQWAQAMGFDSQRQFENRLYRGR 135
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 190
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + ++R + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ER
Sbjct: 290 LQLPEEQMNEGMLRNEISAVLSDVLTEREKDVISLRYGLSTSQPHTLEEVGGMFNLSRER 349
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 350 VRQIQSKAMRKLRR 363
>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 = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L EK+ L + REPT EWA +
Sbjct: 24 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALLGEKATLAQELEREPTTEEWASYVNK 83
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +LK + G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 84 SEAELKKAIDQGTRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 143
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 144 PTRGYKFST 152
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/61 (50%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+RQ + LL L P++R ++ LRFG+EDGK SL++VG LS+ERVRQLE +AL +L+
Sbjct: 262 LRQDLNLLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRERVRQLEHQALAQLR 321
Query: 458 Q 458
+
Sbjct: 322 R 322
>gi|257058077|ref|YP_003135965.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8802]
gi|256588243|gb|ACU99129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8802]
Length = 375
Score = 98.2 bits (243), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 47/115 (40%), Positives = 75/115 (65%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL A EE EL +Q L+ E+++ +L + PT +WA+A+G S R ++ L+ G
Sbjct: 76 LLEAQEEIELAYSVQFLVEAEQKRQQLLEELQHPPTKAQWAQAMGFDSQRQFENRLYRGR 135
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 190
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+++P+ + + ++R + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ER
Sbjct: 290 LQLPEEQMNEGMLRNEISAVLSDVLTEREKDVISLRYGLSTSQPHTLEEVGGMFNLSRER 349
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 350 VRQIQSKAMRKLRR 363
>gi|443329722|ref|YP_007378793.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428682348|gb|AFZ61112.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 332
Score = 98.2 bits (243), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 56/146 (38%), Positives = 83/146 (56%)
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
S+ VK K +E D +R++L LLT ++E Q+Q ++ + K +L
Sbjct: 6 SQPTKVKSKNNEFSSTADAVRIYLHKIGRIPLLTHEQEIFFAKQVQQMMVMLTAKEELSE 65
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ REPT EWA + L L +L G +++K+I ANLRLVV +AK+YQ R I D
Sbjct: 66 KLQREPTRQEWADKMQLEEDMLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNIEFLD 125
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFAN 383
L+QEG++GL + VEKF P G +F+
Sbjct: 126 LIQEGALGLERGVEKFDPTLGYKFST 151
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 46/78 (58%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ +++L+ Q V LL L P+++ ++ LRFG+ G +L ++ G+ +ERVRQL
Sbjct: 252 PERYTERELLYQDVHKLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRIGICRERVRQL 311
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ SY
Sbjct: 312 EKQALTLLRRYGFNSRSY 329
>gi|427418169|ref|ZP_18908352.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
gi|425760882|gb|EKV01735.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 7375]
Length = 319
Score = 98.2 bits (243), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 67/214 (31%), Positives = 105/214 (49%), Gaps = 15/214 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E ++ L+ +E K L G EPTL +W+KA L+ +LK + G
Sbjct: 23 LLTPEQEVTFGNAVRTLMTIETIKDGLVGSLGHEPTLEDWSKAANLTIEELKMAVEKGQR 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG--- 385
++ +++ ANLRLVV VAK+Y R + + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 AKRQMVEANLRLVVSVAKKYLKRNVEILDLIQEGTIGLQRGVEKFDPSKGYRFSTYAYWW 142
Query: 386 ---VEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
I+ + + MR H+ + + +R + + + G+ + E+ N L
Sbjct: 143 IRQAMTRAIAEKSRTMRLPIHIHEKINKIKKTQRQLAQ-----QLGRSATFQEIANALDL 197
Query: 441 SKERVRQLES--RALYRLKQSLGGKASYGYADLL 472
E+VR S R L LG DLL
Sbjct: 198 PLEKVRDCISYNRQPLSLDLRLGDNQDVELGDLL 231
Score = 43.9 bits (102), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 37/172 (21%), Positives = 79/172 (45%), Gaps = 34/172 (19%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
+++K + +L Q GR T E A A+ L ++ + S + ++ +LRL
Sbjct: 170 KIKKTQRQLAQQLGRSATFQEIANALDLPLEKVRDCI----SYNRQPLSLDLRL------ 219
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLL 406
+ + L DLL++ S P+ ++LM V +++
Sbjct: 220 -GDNQDVELGDLLEDDSQS-----------------------PEDYAAQELMHSDVADMM 255
Query: 407 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ L +++ ++ L FG++ G+ + +++G+ +S+ER RQ+E A L++
Sbjct: 256 STLTKQQQEVLSLHFGLKGGQKMTFAQIGSRLNVSRERARQIEREAFKFLRR 307
>gi|78183723|ref|YP_376157.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9902]
gi|78168017|gb|ABB25114.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9902]
Length = 332
Score = 97.8 bits (242), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 62/192 (32%), Positives = 105/192 (54%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q L+ +E +++L+S+ G +P + AKA LS LK +L G+
Sbjct: 37 LLTHEQEITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELSTVQLKRKLQQGHR 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R E G+ +++E+ L
Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQELGRTPTVTELAQFVDL 211
Query: 441 SKERVRQLESRA 452
++ V+ L RA
Sbjct: 212 PEDEVKDLMCRA 223
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V++ ++ +R+LL L + ++R+RFG++ P SL+ +G I G+S++RVR
Sbjct: 250 ELPSDQVEEDCLKGDLRSLLGQLPHLQEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVR 309
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 310 NLERDGLAGLRR 321
>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 = 97.8 bits (242), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L LLT+D+E Q+Q +I +E +K +L Q REP L E A +
Sbjct: 7 DMVRVYLREIGQFPLLTSDQEITYGRQVQQMIAIEGQKKQLSQQLHREPKLAELADFVNK 66
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ L G +++K++ ANLRLVV +AK+YQ R + L DL+QEG++GL + +EKF
Sbjct: 67 SETEVTQILQLGQRAKQKMVTANLRLVVSIAKKYQRRNLELLDLIQEGAIGLQRGIEKFD 126
Query: 375 PQAGCRFAN 383
P G + +
Sbjct: 127 PNRGYKLST 135
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 48/69 (69%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++++RQ + NLL L P +R ++ LRFG+ D + +SL+++G +S+ERVRQ+
Sbjct: 236 PNEQITQEMLRQDLDNLLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQI 295
Query: 449 ESRALYRLK 457
+ +A+ L+
Sbjct: 296 QQQAMNILR 304
>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 = 97.8 bits (242), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 51/128 (39%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVFGKQVQHMMTLLEAKEALAKKLRREPSLPEWAADVNQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S D+K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETDVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PTRGYKFS 145
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 63/230 (27%), Positives = 102/230 (44%), Gaps = 44/230 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP R + W + TR + L I + L +++K + +L
Sbjct: 129 LERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELA 188
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR PT +E AK + L ++ L N +R+ + L V V + L
Sbjct: 189 QKLGRSPTPVEIAKELELEPAQIREYL---NMARQPV-----SLDVRVG---DNQDTELQ 237
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
D+L++ P+ ++ +RQ + NLL L P++R +
Sbjct: 238 DMLEDDGPS-----------------------PEYYTNQEFLRQDLNNLLAELTPQQREV 274
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
+ LRFG+EDG SL++VG LS+ERVRQLE +AL L++ Y
Sbjct: 275 LALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRRRRANVKEY 324
>gi|116071698|ref|ZP_01468966.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
gi|116065321|gb|EAU71079.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
Length = 332
Score = 97.8 bits (242), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 62/192 (32%), Positives = 105/192 (54%), Gaps = 13/192 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q L+ +E +++L+S+ G +P + AKA LS LK +L G+
Sbjct: 37 LLTHEQEITLGRQVQQLMEIETLEAELESRDGAKPARDQLAKAAELSTVQLKRKLQQGHR 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
+ + + + H+ +L L +R E G+ +++E+ L
Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQELGRTPTVTELAQFVDL 211
Query: 441 SKERVRQLESRA 452
++ V+ L RA
Sbjct: 212 PEDEVKDLMCRA 223
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V++ ++ +R+LL L + ++R+RFG++ P SL+ +G I G+S++RVR
Sbjct: 250 ELPSDQVEEDCLKGDLRSLLGQLPHLQEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVR 309
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 310 NLERDGLAGLRR 321
>gi|452819932|gb|EME26982.1| RNA polymerase primary sigma factor [Galdieria sulphuraria]
Length = 544
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 68/207 (32%), Positives = 109/207 (52%), Gaps = 10/207 (4%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGNS 328
L+ +EE ++ QIQ L E+E+ ++ GR PTL EWA+A+G S + ++
Sbjct: 219 LSFEEEVDICNQIQLLRTWERERDRVSELLGRNPTLAEWAEAVGFSDSVEFARKIKGLRE 278
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
S++K+I++NLRLV ++A+ Y G+SL DL+QEGS+GL+K+ E+F G RF + +
Sbjct: 279 SKDKIIHSNLRLVYYIARFYSKYGLSLQDLMQEGSIGLIKAAERFDSSKGFRFGSYAIWW 338
Query: 389 PDISVQKQLMRQ--HVR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
++ + L Q H R ++ R +L E G+ + EV GL+ E
Sbjct: 339 IKYAMTRALTEQTRHWRIPAYFYEFMSTIRRTDSKL--TAELGREPTQEEVFKESGLTIE 396
Query: 444 RVRQLESRALYRLKQSLGGKASYGYAD 470
+ + L+ L SL SY Y D
Sbjct: 397 QFQTANRCLLHSL--SLDSPLSYEYGD 421
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/221 (25%), Positives = 104/221 (47%), Gaps = 39/221 (17%)
Query: 246 KLSEGFDRNDPLRL---FLWGPE---TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQ 298
K +E FD + R +W + TR L + + A + + + + SKL ++
Sbjct: 318 KAAERFDSSKGFRFGSYAIWWIKYAMTRALTEQTRHWRIPAYFYEFMSTIRRTDSKLTAE 377
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
GREPT E K GL+ ++ + + +L L ++ +Y + +L D
Sbjct: 378 LGREPTQEEVFKESGLTIEQFQTA--------NRCLLHSLSLDSPLSYEYGDKRTTLGDT 429
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTL-LNPKERCIV 417
+ AG V P+ ++ ++R+ + +L + L P+ER ++
Sbjct: 430 V-----------------AG------DVLHPEDELENNMLRRDLEKILEVTLTPRERDVI 466
Query: 418 RLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
R+RFG++DG K+L E+ +IF +++ER+R LE AL +L+
Sbjct: 467 RMRFGLDDGACKTLDEISSIFCVTRERIRHLELSALRKLRH 507
>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 = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 75/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K KL Q GRE EWA+ + +
Sbjct: 18 DMVRTYLHEIGRVPLLTPEQEISYGKQVQKMMSLIEAKEKLNKQLGREANKQEWAQYVQM 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+L+ G ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 DPEELEKTQQKGQRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGFKFST 146
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++L+RQ +R LL L P+++ ++ LRFG+EDGK SL+++G LS+ERVRQL
Sbjct: 247 PDKYITQELLRQDLRMLLDELTPQQQQVISLRFGLEDGKEMSLAKIGKQLNLSRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 EHQALAHLRK 316
>gi|412993395|emb|CCO16928.1| RNA polymerase sigma factor RpoD [Bathycoccus prasinos]
Length = 733
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 66/229 (28%), Positives = 123/229 (53%), Gaps = 26/229 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF--GREP--------- 303
D ++++L + LL A+EE +L +IQDL+ LE +L ++ G +P
Sbjct: 378 DSMKVYLKEIGSVSLLNANEEVQLARKIQDLMNLETTYKELVAKVAEGNDPIAQTHGDKV 437
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
T WA+ +GL+ +L+ L G +++ +I ANLRLVV +AK+Y R +S DL+QEG
Sbjct: 438 TKSMWARELGLTEFELEMRLTEGKNAKNHMIQANLRLVVSIAKRYANRNMSFQDLIQEGC 497
Query: 364 MGLMKSVEKFKPQAGCRFANTG------VEIPDISVQKQLMR--QHVRNLLTLLNPKERC 415
+GL++ EKF + G +F+ IS Q + +R H+ +++ +N E+
Sbjct: 498 VGLIRGAEKFDFERGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMNKLEQ- 556
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL--YRLKQSLGG 462
+F +++G+ +L E+ + + + ++ Q++ A+ L Q++G
Sbjct: 557 ----KFIVQNGREATLEEISAMMEMPQVKITQIKKAAMAPVSLAQAVGA 601
Score = 82.0 bits (201), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 33/73 (45%), Positives = 58/73 (79%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
E P+ S K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+GN+F +++ER+
Sbjct: 617 TEHPEESSGKVLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERI 676
Query: 446 RQLESRALYRLKQ 458
RQ+E++AL +L+Q
Sbjct: 677 RQIEAKALRKLRQ 689
>gi|19910024|dbj|BAB87263.1| RNA polymerase sigma factor [Cyanophora paradoxa]
Length = 431
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 53/118 (44%), Positives = 80/118 (67%), Gaps = 3/118 (2%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN 327
LL A++E EL +I+ +LEK K ++ + G EPT EWA+A LS +L+ + G
Sbjct: 126 LLKAEDEIELAKRIETFRKLEKVKEHMKWKTGVEPTDEEWARAAALSDAEELRHMVRVGT 185
Query: 328 SSREKLINANLRLVVHVAKQY-QGRG-ISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+R++L+ ANLR VV VAK+Y + RG +S+ DL+QEG++GL+++VEKF P+ G RF
Sbjct: 186 LARDRLVRANLRWVVAVAKKYHKQRGTMSMQDLIQEGNIGLIRAVEKFDPRMGYRFTT 243
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 54/195 (27%), Positives = 97/195 (49%), Gaps = 32/195 (16%)
Query: 266 TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + + E L A + I R+++ L GR+PT E A+ +GL ++ +
Sbjct: 254 TRSIQNSSREIRLPAHRHEKINRIKRATVALSRSLGRQPTEAEIAEHVGLDPSRMRKFVE 313
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
S + A + L V + + + ++ D + R N
Sbjct: 314 SAAAV------ATVSLDVPI-NESDNQSATIGDFI--------------------RSENE 346
Query: 385 GVEIPDISVQKQLMRQHV-RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
G P +++LMR+ V R L L+ +E ++R+RFG++DG+PK+L++VG G+++E
Sbjct: 347 G---PADRAERELMRESVARTLAKALSEREYMVLRMRFGLDDGEPKTLNQVGETLGVTRE 403
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+E +AL +L++
Sbjct: 404 RVRQIEMKALRKLRR 418
>gi|428307214|ref|YP_007144039.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428248749|gb|AFZ14529.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 318
Score = 97.8 bits (242), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L+ L KS L ++ G EP +WA+A
Sbjct: 8 TDTVRAYLREIGRVPLLTHEQEILYGKQVQRLVALRAVKSSLSAELGDEPNFSQWAQACE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L ++L+ + + ++ K++ ANLRLVV VAK+Y R I L DL+QEG++G+ + VEKF
Sbjct: 68 LEEQELQQAIATAELAKRKMVEANLRLVVSVAKKYIKRNIDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V + M+ + LL+ L ++R ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+
Sbjct: 238 PEDFVTQSAMQMDLEKLLSDLTQQQRDVLSLRFGLADGQPLTLAKIGDRLSISRERVRQI 297
Query: 449 ESRALYRLKQSLGGKASY 466
E AL +L++ Y
Sbjct: 298 EREALAKLRKRKADMGEY 315
>gi|416411729|ref|ZP_11688760.1| sigma-70 factor [Crocosphaera watsonii WH 0003]
gi|357260283|gb|EHJ09729.1| sigma-70 factor [Crocosphaera watsonii WH 0003]
Length = 442
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 52/117 (44%), Positives = 78/117 (66%), Gaps = 7/117 (5%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI---EWAKAIGLSCRDLKSELHS 325
LL DEE EL Q++ ++ ++K LQ E + I EWAK IG+S R+L+ L
Sbjct: 20 LLKPDEEIELGKQVKRMMTCWEKKENLQV----EKSYITEEEWAKEIGISVRELQLILKR 75
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
G ++EK+I ANLRLVV V+K+YQG+G+ DL+ EG++GL+++VEKF+ G +F+
Sbjct: 76 GKRAKEKMIQANLRLVVAVSKKYQGKGLEFMDLVSEGNLGLIRAVEKFEYDKGYKFS 132
>gi|428226189|ref|YP_007110286.1| RpoD subfamily RNA polymerase sigma-70 subunit [Geitlerinema sp.
PCC 7407]
gi|427986090|gb|AFY67234.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Geitlerinema sp.
PCC 7407]
Length = 318
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 73/115 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L L+ + L ++ REPT EWA+A G+S DL+ + G
Sbjct: 23 LLTHEQEILYGKQVQRLSGLQSIREGLVERWDREPTSTEWAEAAGVSEADLEQVIQEGEL 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137
Score = 54.7 bits (130), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 43/61 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + L+ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 LRMDLEELMADLTPQQREVLSLRFGLRDGQAMTLAKIGDRLNISRERVRQIEREALTKLR 306
Query: 458 Q 458
+
Sbjct: 307 K 307
>gi|406920079|gb|EKD58207.1| hypothetical protein ACD_57C00003G0002 [uncultured bacterium]
Length = 448
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 54/138 (39%), Positives = 84/138 (60%), Gaps = 9/138 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA +E EL AQ + + + +L + GR+PTL E A +G
Sbjct: 130 SDPVRMYLREIGKVDLLTAKQEIEL-AQCAEAFKFRRTDKRLAKELGRKPTLPEIAVEMG 188
Query: 314 LSCRDLKSELHS--------GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
L + +K+ + G ++ LI ANLRLVV +AK+Y GRG++ DL+QEG++G
Sbjct: 189 LDKKVIKAVEKTSKDWNDKQGEAAERMLIQANLRLVVSIAKKYMGRGLTFLDLIQEGNIG 248
Query: 366 LMKSVEKFKPQAGCRFAN 383
LM++VEKF + G +F+
Sbjct: 249 LMRAVEKFDWRRGFKFST 266
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/66 (43%), Positives = 52/66 (78%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
S ++L++ H+ +L LNP+ER ++ LRFG++DG+ ++L EVG FG+++ER+RQ+E++
Sbjct: 371 SASQELLKGHINEVLDTLNPRERKVLELRFGLKDGRSRTLEEVGRDFGVTRERIRQIEAK 430
Query: 452 ALYRLK 457
AL +L+
Sbjct: 431 ALRKLR 436
>gi|148238489|ref|YP_001223876.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH
7803]
gi|147847028|emb|CAK22579.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 355
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++LQ + G E E AKA GLS LK +L +G
Sbjct: 59 LLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAELAKAAGLSAVQLKRKLQAGR 118
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 119 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 174
Score = 50.1 bits (118), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL L + ++R+R+G++ P SL+ +G + G+S++RVR
Sbjct: 273 ELPSEQVEGECLKGDLRDLLGQLPELQERVLRMRYGMDGEDPMSLTGIGRVIGISRDRVR 332
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 333 NLERDGLAGLRR 344
>gi|443329714|ref|YP_007378785.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428682340|gb|AFZ61104.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 328
Score = 97.4 bits (241), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 52/128 (40%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE Q+Q +I L+ +K L+ Q EP+ E A+ + L
Sbjct: 18 DIVRNYLQDIVRVPLLTHEEEISSSKQVQQMITLQNKKETLKKQLNHEPSQKELAQYVQL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K G +++K+I ANLRLVV +AK+YQGR + DL+QEGS+GL + VEKF
Sbjct: 78 SEMEVKEIFQKGVQAKQKMIAANLRLVVSIAKKYQGRNVEFMDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
G +F+
Sbjct: 138 STRGYKFS 145
Score = 45.8 bits (107), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 45/81 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+I V + LMRQ + L L P+++ ++ L +G+E +L++V +S+ RVR L
Sbjct: 248 PEIQVTQNLMRQDIYLSLRELTPQQQQVLILHYGLEHNCELTLTQVAQHLNISERRVRYL 307
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL L++ Y ++
Sbjct: 308 EKQALSYLRRCHTNLQEYIFS 328
>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 = 97.4 bits (241), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/132 (37%), Positives = 75/132 (56%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D ++L+ + L +EE L QI L+ LEK KL+ + R P IEWA +
Sbjct: 187 DSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEWATEAKM 246
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L L G ++ +++ ANLRLV VAK+YQ RG+ DL+QEG +GL+++ EKF
Sbjct: 247 SKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFD 306
Query: 375 PQAGCRFANTGV 386
G +F+ G+
Sbjct: 307 HTKGYKFSTYGI 318
Score = 68.2 bits (165), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 82/149 (55%), Gaps = 18/149 (12%)
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
K I + C L +E ++R ++ L+ ++ A++ +SL + +G + K
Sbjct: 353 VKQISIECSPLTAE---EVATRMEMTTEKLQFIIECAQE----TLSLDYPINKGENIIYK 405
Query: 369 SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKP 428
+ KF E P V + +++ V ++L L +ER ++++RFG++DG+
Sbjct: 406 EMIKFNG-----------ETPTKYVFENCLQEDVESVLKTLTERERNVLQMRFGLDDGQE 454
Query: 429 KSLSEVGNIFGLSKERVRQLESRALYRLK 457
K+L E+G+ F L++ER+RQ+E++AL +L+
Sbjct: 455 KTLKEIGDTFNLTRERIRQIEAKALRKLE 483
>gi|148241197|ref|YP_001226354.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147849507|emb|CAK27001.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 324
Score = 97.4 bits (241), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 79/115 (68%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+L+RLE+ +++ + + G EP+ E A + G+S L+ L +G
Sbjct: 29 LLSHEQEITLGRQVQELVRLEEAEAEFKMRQGHEPSREELASSFGISPAVLRRRLINGRR 88
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 89 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 143
Score = 46.6 bits (109), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 44/80 (55%)
Query: 379 CRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 438
C +P V ++ +R+LL L P + ++++R+GI+ +P SL+ +G
Sbjct: 234 CELLQNDAPMPHELVDGDCLKGDMRSLLEQLPPLQGRVLKMRYGIDVEEPMSLTGIGREL 293
Query: 439 GLSKERVRQLESRALYRLKQ 458
G+S++RVR LE L L++
Sbjct: 294 GMSRDRVRNLERDGLAGLRR 313
>gi|434406935|ref|YP_007149820.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428261190|gb|AFZ27140.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 349
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 68/115 (59%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q L + + L +Q GR+P L EWA A L L + G
Sbjct: 54 LLTHEEEIFYGKQVQRATALHEVREFLATQLGRQPNLEEWAAATKLETTALNEAIADGEI 113
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF+
Sbjct: 114 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFST 168
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 45/184 (24%), Positives = 85/184 (46%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L Q GR PT E A+ + L+ + + RE L A L L +
Sbjct: 197 EKLNKIKKAQRQLSQQLGRAPTAAELAQELELTPKQV----------REYLEKARLPLSL 246
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
++ + + + G + G P+ V + + +
Sbjct: 247 D-----------------------LRLGDNYDTELGEMLEDPGAS-PEEFVMQSSLSYDL 282
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L P+++ ++ LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L++S
Sbjct: 283 ERLIAELTPQQKEVITLRFGLIDGQALTLAKIGEILNISRERVRQIEREALTKLRKSKAN 342
Query: 463 KASY 466
Y
Sbjct: 343 MDEY 346
>gi|242041441|ref|XP_002468115.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor]
gi|241921969|gb|EER95113.1| hypothetical protein SORBIDRAFT_01g039810 [Sorghum bicolor]
Length = 528
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 60/189 (31%), Positives = 102/189 (53%), Gaps = 11/189 (5%)
Query: 218 RRSKKRKVSKPQVTNHETYNSRKA----SVKKKLSEGFDRNDPLRLF--LWGPETRKLLT 271
R +K + + + + ++SR A S +KK +G PL F + GP +LLT
Sbjct: 175 RTERKARRVRAAMKAAKCFSSRNAVGASSTRKKRLKGC--QTPLGCFYKMTGP---RLLT 229
Query: 272 ADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSRE 331
A++E E IQDL++LE + ++ G EPT +WA A G L+ L+ G +
Sbjct: 230 AEQEVEFSEGIQDLLKLEAIQKEVAQYNGGEPTFSQWAAAAGTDENTLRRRLNHGVYCKN 289
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDI 391
+++ +N+RLV+ +AK+++G G+ DL+QEG GL++ EKF G RF+
Sbjct: 290 RMVKSNVRLVISIAKEHEGPGMEFSDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWIKQ 349
Query: 392 SVQKQLMRQ 400
+++K ++ Q
Sbjct: 350 AIRKSVLEQ 358
Score = 73.2 bits (178), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 37/104 (35%), Positives = 60/104 (57%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L K F + GC +PD S + + LM++ V L L+P+E
Sbjct: 407 EAAMSLPKYSVSFTSKVGCTDVTYQEIMPDTSAETAEEVLHRWLMKKDVNTALESLSPRE 466
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ ++R RFGIE G+P++L ++G I G+S+ER+RQ+E A +L+
Sbjct: 467 KLVMRYRFGIEGGRPRTLHDIGQIMGVSRERIRQIELGAFRKLR 510
>gi|148239880|ref|YP_001225267.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. WH 7803]
gi|147848419|emb|CAK23970.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 322
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 107/193 (55%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++LQ + G E E AKA GLS LK +L +G
Sbjct: 25 LLSHQQEITLGRQVQELMDLEATEAELQEKRGGEAVPAAELAKAAGLSAVQLKRKLQAGR 84
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + + G+ S++E+
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----DLGRTPSVTELAAFVE 199
Query: 440 LSKERVRQLESRA 452
L ++ V++L RA
Sbjct: 200 LPEDEVKELMCRA 212
Score = 43.5 bits (101), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 43/73 (58%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL L + ++R+R+G++ P SL+ + +S++R R
Sbjct: 239 ELPSEQVEGECLKGDLRDLLGQLPELQERVLRMRYGMDGEDPMSLTGIAKTLKMSRDRTR 298
Query: 447 QLESRALYRLKQS 459
+LE L L+Q+
Sbjct: 299 RLEREGLESLRQA 311
>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 = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L + K L + REPTL EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIIFGKQVQQMMILVEAKEALAKKLQREPTLEEWAIQVNQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+L +H G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 PEAELNLTVHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNELSLAKVGERLSLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>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 = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 75/115 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL +EE EL +++ ++ E+ + +LQ++ R+P E A +G+S R L+ L+ G
Sbjct: 86 LLKPEEEVELARRVKFIVEFEEIQQRLQAEIKRQPNKAEVATLLGMSERQLEHRLYQGRV 145
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 146 AKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRAAEKFDPDKGYKFST 200
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 97/189 (51%), Gaps = 36/189 (19%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341
++ L +L+K + +L+ Q R P+ +E A+ + +S L+ L
Sbjct: 228 VEKLNKLKKAQRELKQQLQRNPSEVELAQFLEISAEHLRQLL------------------ 269
Query: 342 VHVAKQYQGRGISL-HDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
Q + + +SL H + +E L+ +E Q+ P+ + + +MRQ
Sbjct: 270 -----QLRRKSLSLNHRVGKEEDTELVDLLEDEDSQS-----------PEQQMSETMMRQ 313
Query: 401 HVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+ ++L +L P+E+ ++ LR+G+ +P +L EVG+IF LS+ERVRQ++S+A+ +L++
Sbjct: 314 EIWDVLGDVLTPREKDVISLRYGLITSEPCTLEEVGSIFNLSRERVRQIQSKAMRKLRRP 373
Query: 460 LGGKASYGY 468
K G+
Sbjct: 374 QIAKRLKGW 382
>gi|115452175|ref|NP_001049688.1| Os03g0271100 [Oryza sativa Japonica Group]
gi|29893614|gb|AAP06868.1| unknown protein [Oryza sativa Japonica Group]
gi|32351880|dbj|BAC78529.1| plastid sigma factor 2B [Oryza sativa Japonica Group]
gi|108707414|gb|ABF95209.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica
Group]
gi|113548159|dbj|BAF11602.1| Os03g0271100 [Oryza sativa Japonica Group]
gi|215704451|dbj|BAG93885.1| unnamed protein product [Oryza sativa Japonica Group]
gi|215765869|dbj|BAG87566.1| unnamed protein product [Oryza sativa Japonica Group]
Length = 540
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%), Gaps = 3/143 (2%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
+S +KK +G PL F + R+LLTA +E E IQDL++LE + +L G
Sbjct: 214 SSARKKRLKGC--RSPLGCF-YKMTGRRLLTAKQEVEFSQGIQDLLKLEAIQKELAHYNG 270
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EPT +WA+A G L+ L+ G S + ++ +N+RLV+ +A++++G G+ DL+Q
Sbjct: 271 GEPTFSQWAEAAGTDENTLRKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQ 330
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG GL++ EKF G RF+
Sbjct: 331 EGIQGLVRGAEKFDASKGFRFST 353
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 58/104 (55%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L K + GC PD S + + LM++ V L L+P+E
Sbjct: 419 EAAMSLPKYTVSLTSKVGCTDMTYQEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPRE 478
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R ++R RFG++DG+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 479 RQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLR 522
>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 = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 73/115 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L +++ + +L + G EP L EWA A LS +L+ ++ G
Sbjct: 23 LLTHEQEILYGKQVQQLAIVQQVREELSDRLGHEPDLTEWATAAKLSEAELQGVVNRGEL 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF+
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFST 137
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 49/174 (28%), Positives = 86/174 (49%), Gaps = 34/174 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L +++K + +L Q GR T+ E A+ + L+ + ++ L L L V V
Sbjct: 168 LNKIKKAQRQLSQQLGRAATIGELAQELELTPKQVREYLERSRQP--------LSLDVRV 219
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ L +LL++ + S E F QA +R +
Sbjct: 220 G---DNQDTELGELLEDTAA----SPEDFTSQAS-------------------LRADLDR 253
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P++R ++ LRFG+EDG+P +L++VG++ +S+ERVRQ+E AL +L++
Sbjct: 254 LMADLTPQQRQVLSLRFGLEDGQPLTLAKVGDMLNISRERVRQIEREALSKLRK 307
>gi|422303174|ref|ZP_16390528.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9806]
gi|389791889|emb|CCI12331.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9806]
Length = 435
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 101/199 (50%), Gaps = 35/199 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + +L ++ P+L WAK +S +LK+ L +G
Sbjct: 125 AQVQQFVKLIAVRDQLTARLAHRPSLERWAKTAQISVSELKNALKAGKQHWAHLAGLEVG 184
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 185 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 378 GCRFANTGV------EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ I+ Q +++R H+ L + +R I ++R G+
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQMR-----GRTA 299
Query: 430 SLSEVGNIFGLSKERVRQL 448
++ E+ L+ E VR++
Sbjct: 300 TVEEIAQELALTPEAVREV 318
Score = 62.4 bits (150), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 44/62 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+E +AL +L+
Sbjct: 360 LQRDIRELLADLTTRERQVIELRYGFLDGKSHSLADIGRTLALSRERVRQIELKALQKLR 419
Query: 458 QS 459
QS
Sbjct: 420 QS 421
>gi|282899735|ref|ZP_06307698.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis
raciborskii CS-505]
gi|281195350|gb|EFA70284.1| sigD (sigma 28 (flagella/spoulation)) [Cylindrospermopsis
raciborskii CS-505]
Length = 332
Score = 97.1 bits (240), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 53/130 (40%), Positives = 75/130 (57%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L + K L + R+P+L EWAKA
Sbjct: 22 TDIVRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQ 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L ++L L G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 LDPQELNRLLGQGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPSKGYRFST 151
Score = 60.1 bits (144), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 55/96 (57%), Gaps = 1/96 (1%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ + + G + G D +Q L + R ++T L P++R +++LRFG+ DG+ +
Sbjct: 235 DNYDTELGEMLEDPGASPEDYVIQSSLSSELDR-MMTHLTPQQREVIKLRFGLVDGQSMT 293
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
L+ +G + +S+ERVRQ+E AL RL++ + Y
Sbjct: 294 LARIGEVLNISRERVRQIEREALTRLRRCKTSMSEY 329
>gi|125585746|gb|EAZ26410.1| hypothetical protein OsJ_10293 [Oryza sativa Japonica Group]
Length = 497
Score = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%), Gaps = 3/143 (2%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
+S +KK +G PL F + R+LLTA +E E IQDL++LE + +L G
Sbjct: 171 SSARKKRLKGC--RSPLGCF-YKMTGRRLLTAKQEVEFSQGIQDLLKLEAIQKELAHYNG 227
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EPT +WA+A G L+ L+ G S + ++ +N+RLV+ +A++++G G+ DL+Q
Sbjct: 228 GEPTFSQWAEAAGTDENTLRKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQ 287
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG GL++ EKF G RF+
Sbjct: 288 EGIQGLVRGAEKFDASKGFRFST 310
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 58/104 (55%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L K + GC PD S + + LM++ V L L+P+E
Sbjct: 376 EAAMSLPKYTVSLTSKVGCTDMTYQEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPRE 435
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R ++R RFG++DG+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 436 RQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLR 479
>gi|440682243|ref|YP_007157038.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428679362|gb|AFZ58128.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 318
Score = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 74/130 (56%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q R+P L EWA A
Sbjct: 8 TDLVRTYLREIGRVPLLTHEEEIRYGKQVQRCTALYEVRENLATQLDRQPNLEEWAAAAQ 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +L + G +++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 68 IELVELNEAIAEGETAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 57.4 bits (137), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 54/89 (60%), Gaps = 1/89 (1%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ + + G +TG D +Q L + ++ L P+++ +++LRFG+ DG+ +
Sbjct: 221 DNYDTELGELLEDTGASPEDFVMQSSL-SYDLERMMAELTPQQKEVIKLRFGLLDGQSLT 279
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQS 459
L+++G I +S+ERVRQ+E AL +L++S
Sbjct: 280 LAKIGEILNISRERVRQIEREALTKLRKS 308
>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 = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 52/136 (38%), Positives = 80/136 (58%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
S + D +R +L LLT +EE Q+Q +++L + K L ++ R+ T E
Sbjct: 18 SRPYSSTDTVRAYLHEIGRVPLLTREEEIVFGKQVQQMMKLIEAKQALAKEWQRDLTNQE 77
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + L+ +L LH G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL
Sbjct: 78 WAAEMELTEPELSRILHIGRRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLE 137
Query: 368 KSVEKFKPQAGCRFAN 383
+ VEKF P G +F+
Sbjct: 138 RGVEKFDPMRGYKFST 153
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + +L+RQ + L++ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 254 PDNYITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRERVRQL 313
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 314 EHQALAHLRR 323
>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 = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 52/136 (38%), Positives = 80/136 (58%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
S + D +R +L LLT +EE Q+Q +++L + K L ++ R+ T E
Sbjct: 18 SRPYSSTDTVRTYLHEIGRVPLLTREEEIVFGKQVQQMMKLIEAKQALAKEWQRDLTNQE 77
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + L+ +L LH G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL
Sbjct: 78 WAAEMELTEPELSRILHIGRRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLE 137
Query: 368 KSVEKFKPQAGCRFAN 383
+ VEKF P G +F+
Sbjct: 138 RGVEKFDPMRGYKFST 153
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + +L+RQ + L++ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 254 PDNYITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRERVRQL 313
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 314 EHQALAHLRR 323
>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 = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 49/114 (42%), Positives = 70/114 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL EE EL IQ+L+ EK KL + GR PT E A A G + L LH +
Sbjct: 84 LLNQKEEIELAKLIQELVVFEKLPEKLANDLGRTPTKSEVAVAAGFTESQLDHRLHQCRT 143
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ ++I++NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 144 AKRRMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFS 197
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 49/71 (69%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + +MRQ + +L +L+ +E+ ++ LR+G+ G+P +L EV + LS+ERVRQ
Sbjct: 300 PEAQMNDMMMRQDILEVLNHVLSNREQDVISLRYGLITGEPHTLDEVSRMINLSRERVRQ 359
Query: 448 LESRALYRLKQ 458
++++A+ +L++
Sbjct: 360 IQAKAMRKLRR 370
>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 = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 50/128 (39%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E Q+Q ++ L + K L+ RE TL EWA+
Sbjct: 22 DMVRTYLQEIGKVPLLSHEQEIVFGKQVQQMMSLYEVKENLEKNLEREVTLEEWAQKADK 81
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ ++K +H G +++K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 82 TPNEVKKIIHQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFD 141
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 142 PTKGFKFS 149
Score = 72.8 bits (177), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 36/81 (44%), Positives = 54/81 (66%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++LMRQ ++ LL L P+++ +VRLRFG+EDGK SL+++G +S+ERVRQL
Sbjct: 251 PDNYITQELMRQDLQKLLGELTPQQQQVVRLRFGLEDGKELSLAKIGQRMNISRERVRQL 310
Query: 449 ESRALYRLKQSLGGKASYGYA 469
E +AL L++ Y A
Sbjct: 311 EQQALAHLRKKRSSVKEYIVA 331
>gi|254415890|ref|ZP_05029647.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196177317|gb|EDX72324.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 352
Score = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 55/149 (36%), Positives = 82/149 (55%), Gaps = 5/149 (3%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T N++ + K S D +R +L LLT ++E Q+Q ++ L + K
Sbjct: 28 TVNTKPKTTKPTFS-----ADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMPLLEAKDA 82
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L REPT+ EWA + L LK ++ G ++ K+I ANLRLVV +AK+YQ R +
Sbjct: 83 LAETLEREPTMQEWADHVDLEESALKKIINQGTRAKRKMIEANLRLVVAIAKKYQKRNME 142
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL + VEKF P G +F+
Sbjct: 143 FLDLIQEGTLGLERGVEKFDPTRGYKFST 171
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/61 (50%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL +L+
Sbjct: 281 LRQDLDNLLAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERVRQLEHQALAQLR 340
Query: 458 Q 458
+
Sbjct: 341 R 341
>gi|425453974|ref|ZP_18833723.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9807]
gi|389799829|emb|CCI20645.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9807]
Length = 443
Score = 96.7 bits (239), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 62/207 (29%), Positives = 105/207 (50%), Gaps = 43/207 (20%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + +L ++ P+L WAK +S +LK+ L +G
Sbjct: 125 AQVQQFVKLIAVRDQLTARLAHRPSLERWAKTAQISVSELKNALKAGKQRWAHLAGLEVG 184
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 185 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 378 GCRFAN-------TGVEIP-------DISVQKQLMR--QHVRNLLTLLNPKERCIVRLRF 421
G RF+ G+ I +I+ Q +++R H+ L + +R I ++R
Sbjct: 245 GYRFSTYAYWWIRQGMTIAVATRSLREIATQSRMIRLPVHITEKLNKIKKAQRKISQIR- 303
Query: 422 GIEDGKPKSLSEVGNIFGLSKERVRQL 448
G+ ++ E+ ++ E VR++
Sbjct: 304 ----GRTATVEEIAQELAVTPEAVREV 326
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 45/62 (72%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+ES+AL +L+
Sbjct: 368 LQRDIRELLADLTTREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIESKALQKLR 427
Query: 458 QS 459
QS
Sbjct: 428 QS 429
>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 = 96.7 bits (239), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 53/132 (40%), Positives = 85/132 (64%), Gaps = 3/132 (2%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI---EWAKA 311
D +RL+L +LL ADEE EL +I DL+ LE ++ +L ++ P + EWA
Sbjct: 81 DSIRLYLQEIGRIRLLRADEEIELARKIADLLELELKREELATEADCHPDDVREPEWAIK 140
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+G+ + + LHSG +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ E
Sbjct: 141 MGMPLGEFRKRLHSGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAE 200
Query: 372 KFKPQAGCRFAN 383
KF + G +F+
Sbjct: 201 KFDHEKGYKFST 212
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E PD V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 305 FIESEGETPDDQVAKSLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 364
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 365 TRERIRQIEAKALRKLRH 382
>gi|166363676|ref|YP_001655949.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
gi|166086049|dbj|BAG00757.1| group 2 RNA polymerase sigma factor [Microcystis aeruginosa
NIES-843]
Length = 414
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 101/199 (50%), Gaps = 35/199 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + + +L +Q P+L WAK + +LK+ L +G
Sbjct: 104 AQVQQFVKLIEVRDQLTAQLAHRPSLERWAKTAQIRVSELKNALKAGKQRWAHLAGLEVG 163
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVKKFDPTK 223
Query: 378 GCRFANTGV------EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ I+ + Q++R H+ L + +R I ++R G+
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATKSQIIRLPVHITEKLNRIKKAQRKISQMR-----GRTA 278
Query: 430 SLSEVGNIFGLSKERVRQL 448
++ E+ L+ E VR+L
Sbjct: 279 TVEEIAQELALTPEAVREL 297
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 44/62 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+E +AL +L+
Sbjct: 339 LQRDIRELLADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIELKALQKLR 398
Query: 458 QS 459
QS
Sbjct: 399 QS 400
>gi|425464343|ref|ZP_18843665.1| RNA polymerase sigma-C factor [Microcystis aeruginosa PCC 9809]
gi|389833688|emb|CCI21586.1| RNA polymerase sigma-C factor [Microcystis aeruginosa PCC 9809]
Length = 414
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 101/199 (50%), Gaps = 35/199 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + + +L +Q P+L WAK + +LK+ L +G
Sbjct: 104 AQVQQFVKLIEVRDQLTAQLAHRPSLERWAKTAQIRVSELKNALKAGKQRWAHLAGLEVG 163
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVKKFDPTK 223
Query: 378 GCRFANTGV------EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ I+ + Q++R H+ L + +R I ++R G+
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATKSQIIRLPVHITEKLNRIKKAQRKISQMR-----GRTA 278
Query: 430 SLSEVGNIFGLSKERVRQL 448
++ E+ L+ E VR+L
Sbjct: 279 TVEEIAQELALTPEAVREL 297
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 44/62 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+E +AL +L+
Sbjct: 339 LQRDIRELLADLTAREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIELKALQKLR 398
Query: 458 QS 459
QS
Sbjct: 399 QS 400
>gi|116074383|ref|ZP_01471645.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
gi|116069688|gb|EAU75440.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
Length = 341
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 66/193 (34%), Positives = 104/193 (53%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE-WAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+QDL+ LE +S+L+S+ G E E AK GLS LK +L +G
Sbjct: 45 LLSHQQEITLGRQVQDLMELEALESELKSESGEEVVAPEALAKKAGLSGVQLKRKLQAGR 104
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 105 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 164
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R E G+ +++E+
Sbjct: 165 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQELGRTPTVTELAEFVE 219
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 220 LPEEEVKDLMCRA 232
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 45/72 (62%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL L +R ++R+R+G+ P SL+ +G I G+S++RVR
Sbjct: 259 ELPSEQVEGECLKGDLRDLLEQLPELQRKVLRMRYGMNGEDPMSLTGIGRIIGISRDRVR 318
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 319 NLERDGLAGLRR 330
>gi|108707415|gb|ABF95210.1| Sigma-70 region 3 family protein, expressed [Oryza sativa Japonica
Group]
gi|215695353|dbj|BAG90544.1| unnamed protein product [Oryza sativa Japonica Group]
Length = 343
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 83/143 (58%), Gaps = 3/143 (2%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
+S +KK +G PL F + R+LLTA +E E IQDL++LE + +L G
Sbjct: 17 SSARKKRLKGC--RSPLGCF-YKMTGRRLLTAKQEVEFSQGIQDLLKLEAIQKELAHYNG 73
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EPT +WA+A G L+ L+ G S + ++ +N+RLV+ +A++++G G+ DL+Q
Sbjct: 74 GEPTFSQWAEAAGTDENTLRKRLNYGISCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQ 133
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG GL++ EKF G RF+
Sbjct: 134 EGIQGLVRGAEKFDASKGFRFST 156
Score = 65.9 bits (159), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 58/104 (55%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L K + GC PD S + + LM++ V L L+P+E
Sbjct: 222 EAAMSLPKYTVSLTSKVGCTDMTYQEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPRE 281
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R ++R RFG++DG+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 282 RQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLR 325
>gi|116073053|ref|ZP_01470315.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
gi|116068358|gb|EAU74110.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
Length = 321
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 65/193 (33%), Positives = 106/193 (54%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE-WAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+QDL+ LE +S+L+S+ G + E AK GLS LK +L +G
Sbjct: 25 LLSHQQEITLGRQVQDLMELEALESELKSESGEDVVAPEALAKKAGLSGVQLKRKLQAGR 84
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + E G+ +++E+
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----ELGRTPTVTELAEFVE 199
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 200 LPEEEVKDLMCRA 212
Score = 42.7 bits (99), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 41/71 (57%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL L +R ++R+R+G+ P SL+ + +S++R R
Sbjct: 239 ELPSEQVESECLKGDLRDLLEQLPELQRKVLRMRYGMNGEDPMSLTGIAKTLKMSRDRTR 298
Query: 447 QLESRALYRLK 457
+LE L L+
Sbjct: 299 RLEREGLEMLR 309
>gi|113954561|ref|YP_729335.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
gi|113881912|gb|ABI46870.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
Length = 335
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 73/224 (32%), Positives = 119/224 (53%), Gaps = 15/224 (6%)
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
SR AS + G + D +R +L LL+ +E L Q+Q+L+ LE +++L+
Sbjct: 9 SRPASASTGRASGAE-VDLVRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKD 67
Query: 298 QFGREPTLIE-WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q G E E AKA G+S LK +L +G ++E+++ ANLRLVV VAK+Y R + L
Sbjct: 68 QRGGEEVAREEVAKAAGVSAAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELL 127
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTL 408
DL+QEG++GL++ VEKF P G +F+ + + + + H+ +L
Sbjct: 128 DLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNK 187
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
L +R + + E G+ S++E+ + L +E V+ L RA
Sbjct: 188 LKKGQRELSQ-----ELGRTPSVTELASFVELPEEEVKDLMCRA 226
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 47/72 (65%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ +G I G+S++RVR
Sbjct: 253 ELPSDQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRDRVR 312
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 313 NLERDGLAGLRR 324
>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 = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 49/128 (38%), Positives = 75/128 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + G EP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALSKKLGHEPSLTEWATHVNQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SENEVTQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PMRGYKFS 145
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R +V LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|428305801|ref|YP_007142626.1| RpoD subfamily RNA polymerase sigma-70 subunit [Crinalium
epipsammum PCC 9333]
gi|428247336|gb|AFZ13116.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Crinalium
epipsammum PCC 9333]
Length = 373
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 90/146 (61%), Gaps = 5/146 (3%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N+ A +K LSE D + F LL A+EE +L Q+Q ++++E+ + +L+
Sbjct: 48 NNGGAKYQKNLSE-----DTVGAFFKEMARYPLLKAEEEVDLANQVQFILQIEEIEERLE 102
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+Q +P+ E A+++G++ + L L+ ++ K+I +NLRLVV +AK+Y RG++
Sbjct: 103 AQLNHKPSKAEIAESLGMNEKQLDHRLYQSRVAKRKMIRSNLRLVVSIAKRYLNRGVAFL 162
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFA 382
DL+QEG++GL ++ EKF P G +F+
Sbjct: 163 DLIQEGALGLNRAAEKFDPDKGYKFS 188
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 51/71 (71%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + +MRQ + +L +LN +ER ++ LR+G+ +P +L EVG++F LS+ERVRQ
Sbjct: 291 PEQQMNDSMMRQDIWEVLDEVLNERERDVICLRYGLASNEPYTLEEVGSLFNLSRERVRQ 350
Query: 448 LESRALYRLKQ 458
++S+A+ +L++
Sbjct: 351 IQSKAMRKLRR 361
>gi|254432638|ref|ZP_05046341.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
gi|197627091|gb|EDY39650.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
Length = 335
Score = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT ++E L Q+Q+L+ LE+ + +L + G P+ E AKA GLS LK L +G
Sbjct: 34 LLTHEQEITLGRQVQELMALEEMEQELTMRAGGTAPSAAELAKAAGLSPAVLKKRLQAGR 93
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 94 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 149
>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 = 96.3 bits (238), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 74/130 (56%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q G EPT+ EWA A
Sbjct: 8 TDLVRTYLREIGRVPLLTHEEEIFYGKQVQRSTALHEIREGLAAQLGHEPTVEEWAAASD 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +L + G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 68 IEVSELNQAIAVGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 54/89 (60%), Gaps = 1/89 (1%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ + + G +TG D +Q L + +++ L P+++ ++ LRFG+ DG+ +
Sbjct: 221 DNYDTELGEMLEDTGATPEDFVMQTSL-SYDLERIMSELTPQQKEVISLRFGLVDGQSLT 279
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQS 459
L+++G + +S+ERVRQ+E AL +L++S
Sbjct: 280 LAKIGEVLNISRERVRQIEREALNKLRKS 308
>gi|298490014|ref|YP_003720191.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae'
0708]
gi|298231932|gb|ADI63068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae'
0708]
Length = 332
Score = 95.9 bits (237), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 75/130 (57%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q G +PTL EWA +
Sbjct: 22 TDLVRTYLREIGRVPLLTHEEEIHYGKQVQRCTTLYEVRENLATQLGYQPTLEEWAASAQ 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +L + + G ++ +++ ANLRLVV VAK+Y R I L DL+QEGS+G+ + VEKF
Sbjct: 82 VEPVELNTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNIDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPTKGYRFST 151
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 86/184 (46%), Gaps = 34/184 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L + GR PT IE A + L+ R + RE L A L L +
Sbjct: 180 EKLNKIKKAQRQLSQKLGRAPTAIELADELELTPRQV----------RECLEKARLPLSL 229
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
++ + + + G +TG D +Q L +
Sbjct: 230 D-----------------------LRLGDNYDTELGEMLEDTGATPEDFVIQSSL-SSDI 265
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L P+++ +++LRFG+ DG+ +LS++G I +S+ERVRQ+E AL +L++S
Sbjct: 266 ERLMKELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRERVRQIEREALTKLRKSKAN 325
Query: 463 KASY 466
Y
Sbjct: 326 INEY 329
>gi|323450165|gb|EGB06048.1| hypothetical protein AURANDRAFT_11909, partial [Aureococcus
anophagefferens]
Length = 325
Score = 95.9 bits (237), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 78/130 (60%), Gaps = 1/130 (0%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L LL+ DEE L ++Q L+ L ++S+L++ GREP+ EWA A G +
Sbjct: 6 RVYLPERAAEPLLSLDEEVALATEVQALVALRAKRSELKAALGREPSGGEWANATGYANY 65
Query: 318 D-LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
L++ + + RE+LI NLRLV+ VAK+Y G++ DL QEG+ GL K+ ++F P
Sbjct: 66 GALRTRMGHMKACREELIQRNLRLVLSVAKRYGDCGLAFTDLCQEGNFGLAKACDRFDPS 125
Query: 377 AGCRFANTGV 386
G RF+ V
Sbjct: 126 KGFRFSTYAV 135
Score = 39.7 bits (91), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 40/71 (56%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLR-FGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + L++ VR +L V R FG++ +P++L+E+ F L++ER+RQ
Sbjct: 251 PERDAAESLLKDEVRRMLDDDLEDREEDVLNRHFGLDGRRPETLAEIAVRFDLTRERIRQ 310
Query: 448 LESRALYRLKQ 458
+E A +L+Q
Sbjct: 311 IEKSAFAKLRQ 321
>gi|254432550|ref|ZP_05046253.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
gi|197627003|gb|EDY39562.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Cyanobium sp. PCC 7001]
Length = 319
Score = 95.9 bits (237), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LLT ++E L Q+Q+L+ LE+ + +L + G P+ E AKA GLS LK L +G
Sbjct: 18 LLTHEQEITLGRQVQELMALEEMEQELTMRAGGTAPSAAELAKAAGLSPAVLKKRLQAGR 77
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 78 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 133
Score = 44.7 bits (104), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 65/266 (24%), Positives = 108/266 (40%), Gaps = 59/266 (22%)
Query: 218 RRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG-------FDRNDPLR-------LF 260
RR+K+R V+ + V+ + Y R + + EG ++ DP R +
Sbjct: 77 RRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAY 136
Query: 261 LWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
W + TR + L I + L +L+K + +L + GR PT+ E A + L
Sbjct: 137 WWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVTELAGYVELPEE 196
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++K L V K G L DLL
Sbjct: 197 EVKDLLCRARQP-----------VSLETKVGDGEDTELLDLL------------------ 227
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGI-----EDGKPKSLS 432
A G E+P+ V + ++ +R LL L + ++++R+GI E +P SL+
Sbjct: 228 ----AGDG-ELPEERVDGECLKGDLRALLEQLPELQGRVLKMRYGIDPQSAEMAEPMSLT 282
Query: 433 EVGNIFGLSKERVRQLESRALYRLKQ 458
+G I G+S++RVR LE L L++
Sbjct: 283 GIGRILGISRDRVRNLERDGLAGLRR 308
>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 = 95.9 bits (237), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE ++Q ++ L + + +L + R+PT EW+ GL
Sbjct: 23 DAVRTYLHEIGRVPLLTREEEIIYGKKVQQMMSLLEMRDELTKELDRDPTAAEWSAKAGL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ ++ G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 83 SESEMTEIMNRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 142
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 143 PMRGYKFST 151
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 62/222 (27%), Positives = 105/222 (47%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L +++K + +L
Sbjct: 134 LERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKKVQRELF 193
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q+GR T E AKA+ L ++ L + ++ +LR+ + L
Sbjct: 194 QQYGRNATPTEIAKALDLEPSQIRDYLLASRHP----VSLDLRVG-------DNQDTELQ 242
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ S D V +QL+RQ +++L+ L P++R +
Sbjct: 243 DLLEDESAS-----------------------ADNYVTQQLLRQDLKDLMADLTPQQREV 279
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 280 LTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 321
>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 = 95.9 bits (237), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 80/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL A+EE EL +I DL+ LE+ + L EP +WA A+ +
Sbjct: 66 DSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERIRDDLSDGMDHEPDDADWAAAVDM 125
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 126 PLPAFRRRLHLGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 185
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 186 HEKGYKFST 194
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 58/78 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 287 FIESDGETPEDEVSKSLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 346
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 347 TRERIRQIEAKALRKLRH 364
>gi|87124760|ref|ZP_01080608.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
gi|86167639|gb|EAQ68898.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
Length = 321
Score = 95.9 bits (237), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 105/193 (54%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++L+ Q G E E A A GLS LK +L +G
Sbjct: 25 LLSHQQEITLGRQVQELMELEALEAELRDQRGGEAVPAAELATAAGLSALQLKRKLQAGR 84
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + E G+ +++E+
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----ELGRTPTVTELAGFVE 199
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 200 LPEEEVKDLMCRA 212
Score = 44.3 bits (103), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 48/80 (60%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P+ V+ + ++ +R+LL L +R ++R+R+G++ +P SL+ + +S++R R
Sbjct: 239 ELPEEQVEVECLKGDLRDLLEQLPDLQRRVLRMRYGMDGEEPMSLTGIAKSLRMSRDRTR 298
Query: 447 QLESRALYRLKQSLGGKASY 466
+LE L L++ G +Y
Sbjct: 299 RLEREGLEMLRRFDGQLEAY 318
>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 = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 47/114 (41%), Positives = 76/114 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + + ++ L + G+EPT +E A + ++ + L+S L+ G
Sbjct: 80 LLKADEEVELARRVRFLEEIRELQAALNLKLGQEPTKLEIASELEMTEKQLESRLYQGRV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 193
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 296 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 355
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 356 IQSKAMRKLRRPHIAKRLKGW 376
>gi|282896368|ref|ZP_06304389.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9]
gi|281198656|gb|EFA73536.1| sigD (sigma 28 (flagella/spoulation)) [Raphidiopsis brookii D9]
Length = 332
Score = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 75/130 (57%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L + K L + R+P+L EWAKA
Sbjct: 22 TDIVRTYLREIGKVPLLTHEQEIYYGKQVQKSTALYETKDNLAQELNRQPSLEEWAKAAQ 81
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L ++L L G ++ K++ ANLRL+V VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 82 LDPQELNRLLAQGEIAKRKMVEANLRLLVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 141
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 142 DPSKGYRFST 151
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 54/96 (56%), Gaps = 1/96 (1%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ + + G + G D +Q L + R ++T L ++R +++LRFG+ DG+ +
Sbjct: 235 DNYDTELGEMLEDPGASPEDYVIQSSLSSELER-MMTHLTTQQREVIKLRFGLVDGQSMT 293
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
L+ +G + +S+ERVRQ+E AL RL++ + Y
Sbjct: 294 LARIGEVLNISRERVRQIEREALTRLRRCKTSMSEY 329
>gi|357112914|ref|XP_003558250.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 537
Score = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 54/160 (33%), Positives = 86/160 (53%), Gaps = 3/160 (1%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
S +KK +G +PL F + R+LLTA +E EL IQD ++LE + ++ G
Sbjct: 211 GSSRKKRVKGC--RNPLGCF-YKMSARRLLTAKQEVELSEGIQDFLKLEAIQKEVAHYNG 267
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
EPT +WA A G L+ L G + ++ +N+RLV+ +AK+++G G DL+Q
Sbjct: 268 GEPTFTQWAAAAGTDENTLRKRLSYGIYCKNMMVKSNVRLVISIAKEFEGPGTEFSDLIQ 327
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
EG GL++ EKF G RF+ +++K ++ Q
Sbjct: 328 EGMQGLIRGAEKFDASKGFRFSTYSHWWIKQAIRKSVLEQ 367
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 57/104 (54%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L + + GC +PD S + + M++ V L L+P+E
Sbjct: 416 EAAMSLPRYSVSLSGKVGCTDVTYQEIMPDKSTETAEETLHRWFMKKDVDTALDSLSPRE 475
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R ++R RFG++DG+ ++L +G + G+S+ER+RQ+E A +L+
Sbjct: 476 REVIRYRFGMDDGRMRTLHNIGELMGVSRERIRQIEMAAFRKLR 519
>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 = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 48/114 (42%), Positives = 70/114 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL Q++ L +E K+ + R PT +E A A+ S D + L S
Sbjct: 93 LLKADEEIELARQVKFLADVEALSKKMGEELKRTPTRLEMANALHCSEADFQHRLQYARS 152
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 153 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFS 206
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 53/181 (29%), Positives = 94/181 (51%), Gaps = 34/181 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + +L+ Q R PT E A + L+ +L S R K ++ N
Sbjct: 232 IHIVEKLNKLKKTQRELRKQLNRTPTEAELAAELDLT----PEQLRSLQQVRRKSLSLNH 287
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G L +LL++GS P+ + + +M
Sbjct: 288 RV-------GKGEDTELMELLEDGS----------------------TLSPESRMNESMM 318
Query: 399 RQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
RQ + ++LT +L +E+ I+ LR+G+ G+P +L EVG IF LS+ERVRQ++++A+ +L+
Sbjct: 319 RQEISDVLTEVLTEREKDIISLRYGLTTGEPHTLEEVGGIFNLSRERVRQIQTKAMRKLR 378
Query: 458 Q 458
+
Sbjct: 379 R 379
>gi|352095348|ref|ZP_08956451.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351679359|gb|EHA62501.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 335
Score = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 72/224 (32%), Positives = 117/224 (52%), Gaps = 15/224 (6%)
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
SR AS + G + D +R +L LL+ +E L Q+Q+L+ LE +++L+
Sbjct: 9 SRPASASTGRASGAE-VDLVRSYLRDIGRVPLLSHQQEITLGRQVQELMDLEALEAELKD 67
Query: 298 QFGREPTLIE-WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q G + E AKA G+S LK +L +G ++E+++ ANLRLVV VAK+Y R + L
Sbjct: 68 QRGEDQVAREEVAKAAGVSAAQLKRKLQAGRRAKERMVAANLRLVVSVAKKYTKRNMELL 127
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTL 408
DL+QEG++GL++ VEKF P G +F+ + + + + H+ +L
Sbjct: 128 DLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNK 187
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
L +R E G+ S++E+ + L +E V+ L RA
Sbjct: 188 LKKGQR-----ELSQELGRTPSVTELASFVELPEEEVKDLMCRA 226
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 47/72 (65%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ +G I G+S++RVR
Sbjct: 253 ELPSEQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGISRDRVR 312
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 313 NLERDGLAGLRR 324
>gi|427737532|ref|YP_007057076.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427372573|gb|AFY56529.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 330
Score = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R FL LL+ +EE +++ L+ L + K L + EP+L WA A+
Sbjct: 20 TDTVRSFLVQIGRVPLLSREEEIFFAQRVKQLMELLQVKEDLTEKSSSEPSLSTWANAVE 79
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ L+ L +G +R+K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 80 MTPTQLQETLDNGEIARQKMIEANLRLVVAIAKKYQHRNLEFVDLIQEGTLGLQRGVEKF 139
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 140 DPDKGYKFST 149
Score = 60.1 bits (144), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 87/180 (48%), Gaps = 34/180 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I Q L +++K + L Q GR PT+ E + + L ++ LH SR+ ++ +L
Sbjct: 174 IHVCQTLKKIKKARRDLTQQLGRNPTISEISSHVSLKPAQIQDYLHM---SRQP-VSLDL 229
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G+ L DLL++ N+ + D V Q +
Sbjct: 230 RV-------GEGQDTELQDLLED--------------------TNSSI---DDYVNSQSL 259
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ + +L L P++R +V L FG+ DG+ +L+EV +S RVRQL+ +A+ RL++
Sbjct: 260 KECLDEMLVELTPQQREVVNLHFGLSDGRELTLTEVAKRMDISHTRVRQLQRQAIARLRR 319
>gi|390439227|ref|ZP_10227637.1| putative RNA polymerase sigma-C factor [Microcystis sp. T1-4]
gi|389837354|emb|CCI31761.1| putative RNA polymerase sigma-C factor [Microcystis sp. T1-4]
Length = 414
Score = 95.5 bits (236), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 63/199 (31%), Positives = 101/199 (50%), Gaps = 35/199 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + + +L +Q P L WAK +S +LK+ L +G
Sbjct: 104 AQLQQFVKLMEVRDQLIAQLAHCPPLERWAKTAQISVPELKNALKAGKQRWAHLAGLEVG 163
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P
Sbjct: 164 ELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLEQAVKKFDPSK 223
Query: 378 GCRFANTGV------EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ I+ Q +L+R H+ L + +R I ++R G+
Sbjct: 224 GYRFSTYAYWWIRQGMTRAIATQSRLIRLPVHITEKLNKIKKAQRKISQMR-----GRTA 278
Query: 430 SLSEVGNIFGLSKERVRQL 448
++ E+ L+ E VR+L
Sbjct: 279 TVEEIAQELALTPEEVREL 297
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/61 (44%), Positives = 42/61 (68%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DG+ SL+ +G LS ERVRQ+ES+AL +L+
Sbjct: 339 LQRDIRELLADLTTREREVIELRYGFLDGQSHSLAAIGRTLELSPERVRQIESKALQKLR 398
Query: 458 Q 458
Q
Sbjct: 399 Q 399
>gi|75908126|ref|YP_322422.1| RNA polymerase sigma factor [Anabaena variabilis ATCC 29413]
gi|75701851|gb|ABA21527.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413]
Length = 327
Score = 95.5 bits (236), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMSLIDAKEALAKKLDREPSLPEWADHVQK 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETEVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + LL L P++R +V LRFG+ DG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>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 = 95.5 bits (236), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMSLIDAKEALAKKLDREPSLPEWADHVQK 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETEVKQTVTQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + LL L P++R +V LRFG+ DG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>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 = 95.5 bits (236), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/143 (37%), Positives = 80/143 (55%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
++ KK ++ D +R +L LLT ++E Q+Q ++ L K L Q
Sbjct: 4 SNTAKKTTKPLFTADMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMALIDAKEALAEQQN 63
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
REPT EWA + LS +L + G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 64 REPTASEWAAQVHLSEDELTRIITLGQRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQ 123
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG++GL + VEKF P G +F+
Sbjct: 124 EGTLGLERGVEKFDPMRGYKFST 146
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + +LL L P++R ++ LRFG++DG SL++VG LS+ERVRQL
Sbjct: 247 PEHFTTQESLRQDLDDLLAELTPQQREVITLRFGLQDGNELSLAKVGQRLNLSRERVRQL 306
Query: 449 ESRALYRLKQ 458
E +AL L++
Sbjct: 307 EHQALAHLRR 316
>gi|443474760|ref|ZP_21064729.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena
biceps PCC 7429]
gi|443020446|gb|ELS34403.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudanabaena
biceps PCC 7429]
Length = 336
Score = 95.5 bits (236), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ +EE Q+Q ++ L + + K+ R PT EWA+A+GL
Sbjct: 27 DMVRTYLHEIGKIPLLSNEEEIVYGKQVQQMMLLFEVQEKIAHNSDRLPTEQEWAEAVGL 86
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
L S + G ++ K+I ANLRLVV VAK+YQ R + L DL+QEG++GL ++V+KF
Sbjct: 87 EPEILHSNIRIGTRAKRKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERAVDKFD 146
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 147 PTKGFKFST 155
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 48/70 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V+++ +R +++LL L K+R ++ LR+G+EDG+ SL+ + LS+E+VRQL
Sbjct: 256 PDNYVERESLRTDIQSLLKELPEKQRQVMVLRYGLEDGQEMSLASISKRMDLSREQVRQL 315
Query: 449 ESRALYRLKQ 458
E +A+ L++
Sbjct: 316 ERQAMDYLRK 325
>gi|428780048|ref|YP_007171834.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
gi|428694327|gb|AFZ50477.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
Length = 375
Score = 95.5 bits (236), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 46/114 (40%), Positives = 74/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L +E ++ +L + G PT E A + LS ++L+ +LH G
Sbjct: 78 LLQPDEEIELAQKVKFLADMENKRQELAIESGSSPTKEELAATVSLSVKELERKLHQGRL 137
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 AKRQMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFS 191
Score = 55.8 bits (133), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 50/74 (67%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+ +P+ + + +M Q + ++L +LN +E+ ++ LR+G+ P +L EVG LS+ER
Sbjct: 291 MRLPEDQMNETMMNQELSDVLGDVLNEREKDVISLRYGLNTSHPYTLEEVGYFLNLSRER 350
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 351 VRQIQSKAMRKLRR 364
>gi|16330303|ref|NP_441031.1| RNA polymerase sigma factor SigD [Synechocystis sp. PCC 6803]
gi|383322044|ref|YP_005382897.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383325213|ref|YP_005386066.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383491097|ref|YP_005408773.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384436364|ref|YP_005651088.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451814461|ref|YP_007450913.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|1652792|dbj|BAA17711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339273396|dbj|BAK49883.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359271363|dbj|BAL28882.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359274533|dbj|BAL32051.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359277703|dbj|BAL35220.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|407958220|dbj|BAM51460.1| RNA polymerase sigma factor SigD [Bacillus subtilis BEST7613]
gi|451780430|gb|AGF51399.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 318
Score = 95.1 bits (235), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 54/130 (41%), Positives = 78/130 (60%), Gaps = 1/130 (0%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL-EKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE QIQ ++ L E +KS + + G + EWAKA
Sbjct: 8 DSVRAYLREIGRVPLLTHEEEIVYAKQIQQVVSLNEIKKSLAEGKDGEPVSPSEWAKAAD 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS R+L+ + G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSIRELEKAIKEGERAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 56.2 bits (134), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 42/55 (76%)
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+L+ L P++R ++ LRFG+ DG+P +L+ +G++ +S+ERVRQ+E AL +L++
Sbjct: 253 SLMAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISRERVRQIEREALNKLRK 307
>gi|427735339|ref|YP_007054883.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427370380|gb|AFY54336.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 339
Score = 95.1 bits (235), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 46/114 (40%), Positives = 75/114 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT++EE L ++Q + L K +L + R+PTL EW+ L+ +L ++ G
Sbjct: 44 LLTSEEEINLAKKVQQRMSLLAIKEELSKKLQRQPTLQEWSDKAQLNDTELLEQIDRGQR 103
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+++K+I ANLRLVV +AK+YQ R + DL+QEG++GL ++V+KF+P G +F+
Sbjct: 104 AKQKMIAANLRLVVTIAKKYQKRNLDFLDLIQEGTLGLERAVDKFQPALGYKFS 157
Score = 53.9 bits (128), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 53/76 (69%), Gaps = 1/76 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V K+ + Q +++LL+ L+P+++ I+ LR+G+EDG+ +L++V G+S++RV QL
Sbjct: 259 PEDYVLKESLNQTIKDLLSKLSPQQQEILTLRYGLEDGQELTLNQVSQRMGISRQRVLQL 318
Query: 449 ESRALYRLKQSLGGKA 464
+ +AL L Q G K+
Sbjct: 319 QRQALAFL-QRYGKKS 333
>gi|428768890|ref|YP_007160680.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
aponinum PCC 10605]
gi|428683169|gb|AFZ52636.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
aponinum PCC 10605]
Length = 363
Score = 95.1 bits (235), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 49/116 (42%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL+A+EE L ++ L E+++ +L Q R P+ +E AKA+GL S R L + L+ G
Sbjct: 64 LLSAEEEVNLAYAVKFLSDCEEKQQELHRQLERTPSKMELAKAMGLESERQLDNRLYKGR 123
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 124 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFST 179
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 46/182 (25%), Positives = 95/182 (52%), Gaps = 36/182 (19%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + L+ R+PT E A+ +G++
Sbjct: 204 IHIVEKLNKLKKAQRILKQDLQRQPTEKELAEEMGIT----------------------- 240
Query: 339 RLVVHVAKQYQGRGISLHDLLQEG-SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
R +H Q + + +SL+ + +G LM+ +E +T + +P+ + + +
Sbjct: 241 RQALHQLLQLKRQSLSLNHRVGKGEDTELMELLE-----------DTNLLLPEDKMNEAM 289
Query: 398 MRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
M Q + ++L+ +L+ +E+ ++ LR+G+ K +L EVG IF LS+ERVRQ++++A+ +L
Sbjct: 290 MHQEIVSVLSDVLSEREKEVIVLRYGLASSKAHTLEEVGKIFDLSRERVRQIQTKAMRKL 349
Query: 457 KQ 458
++
Sbjct: 350 RR 351
>gi|87123242|ref|ZP_01079093.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
gi|86168962|gb|EAQ70218.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
Length = 309
Score = 95.1 bits (235), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 103/193 (53%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++L+ Q G E E A A GLS LK +L +G
Sbjct: 13 LLSHQQEITLGRQVQELMELEALEAELRDQRGGEAVPAAELATAAGLSALQLKRKLQAGR 72
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 73 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 132
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R E G+ +++E+
Sbjct: 133 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQR-----ELSQELGRTPTVTELAGFVE 187
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 188 LPEEEVKDLMCRA 200
Score = 52.4 bits (124), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 48/72 (66%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E+P+ V+ + ++ +R+LL L +R ++R+R+G++ +P SL+ +G + G+S++RVR
Sbjct: 227 ELPEEQVEVECLKGDLRDLLEQLPDLQRRVLRMRYGMDGEEPMSLTGIGRVIGISRDRVR 286
Query: 447 QLESRALYRLKQ 458
LE L L++
Sbjct: 287 NLERDGLAGLRR 298
>gi|119513754|ref|ZP_01632741.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414]
gi|119461595|gb|EAW42645.1| Sigma 28 (Flagella/Sporulation) [Nodularia spumigena CCY9414]
Length = 327
Score = 95.1 bits (235), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 75/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT DEE Q+Q ++ L K L + +P+L EWA + L
Sbjct: 18 DMVRTYLREIGRVPLLTRDEEIIFGKQVQQMMTLLDAKQALAKELDHDPSLPEWAAQVNL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+++ + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 PEKEVTQIVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQRQVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|352093658|ref|ZP_08954829.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351679998|gb|EHA63130.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 321
Score = 95.1 bits (235), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 107/193 (55%), Gaps = 14/193 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE-WAKAIGLSCRDLKSELHSGN 327
LL+ +E L Q+Q+L+ LE +++L+ Q G + E AKA G+S LK +L +G
Sbjct: 25 LLSHQQEITLGRQVQELMDLEALEAELKDQRGEDQVAREEVAKAAGVSAAQLKRKLQAGR 84
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 IPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
+ + + + H+ +L L +R + + E G+ S++E+ +
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQ-----ELGRTPSVTELASFVE 199
Query: 440 LSKERVRQLESRA 452
L +E V+ L RA
Sbjct: 200 LPEEEVKDLMCRA 212
Score = 40.8 bits (94), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 46/79 (58%), Gaps = 1/79 (1%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A G E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ + +
Sbjct: 234 LAGDG-ELPSEQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIAKSMKM 292
Query: 441 SKERVRQLESRALYRLKQS 459
S++R R+LE L L++
Sbjct: 293 SRDRTRRLEREGLEMLRRG 311
>gi|449499005|ref|XP_004160694.1| PREDICTED: LOW QUALITY PROTEIN: RNA polymerase sigma factor
sigB-like [Cucumis sativus]
Length = 286
Score = 94.7 bits (234), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 41/100 (41%), Positives = 67/100 (67%)
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
DL++LE+ + +L ++G EPT +WA A G++ R L+ L+ G ++K+I +N+RLV+
Sbjct: 3 DLLKLERLQEELGERYGNEPTFAQWAAAAGVNQRTLRKRLNYGTLCKDKMIKSNIRLVIS 62
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ K YQG G++L DL+QEG GL++ EKF G +F+
Sbjct: 63 IXKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFST 102
Score = 73.9 bits (180), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 32/63 (50%), Positives = 48/63 (76%)
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
KQ M+Q + +L LNP+E+ ++R RFG+EDG+ K+L E+G I G+S+ER+RQ+ES A
Sbjct: 210 KQFMKQDLEKVLDSLNPREKQVIRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFR 269
Query: 455 RLK 457
+LK
Sbjct: 270 KLK 272
>gi|332708973|ref|ZP_08428943.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332352162|gb|EGJ31732.1| RNA polymerase sigma factor, sigma-70 family//RpoD-like family
[Moorea producens 3L]
gi|332651120|gb|AEE81161.1| putative RNA polymerase sigma factor [Moorea producens 3L]
Length = 373
Score = 94.7 bits (234), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 74/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE +L +++ L+ ++ + LQ + R+PT E A A+ ++ R L+ L+ G
Sbjct: 75 LLKPDEEVDLARRVKFLVEIDHLHNSLQEKLDRKPTKAEVAAAVEMTERQLEGNLYRGRV 134
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 135 AKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFS 188
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 93/181 (51%), Gaps = 34/181 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + +L+ + R P +E A+A+ +S S L R + ++ N
Sbjct: 214 IHIVEKLNKLKKAQRELKQKLQRNPNELELAQALEISL----SHLRQLLELRRRSLSLNH 269
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G L DLL++ + L P+ + + +M
Sbjct: 270 RV-------GKGEDTELMDLLEDNDLRL----------------------PEDKMNESMM 300
Query: 399 RQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
RQ + +L+ +L +E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L+
Sbjct: 301 RQEIWEVLSDVLTEREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSKAMRKLR 360
Query: 458 Q 458
+
Sbjct: 361 R 361
>gi|427722651|ref|YP_007069928.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427354371|gb|AFY37094.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 328
Score = 94.7 bits (234), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 56/129 (43%), Positives = 81/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE Q+Q+L+RL E+ L+ + RE T EWA+AI L
Sbjct: 18 DMVRTYLREIGRVPLLTHEEEIVYGKQVQELMRLLAERETLEERLERESTFSEWAEAIKL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++L+ + G ++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 78 SEKELRRAVAVGERAKRKMIEANLRLVVAIAKKYQKRNLEFLDLIQEGSLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/71 (43%), Positives = 51/71 (71%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD +V +L++Q +++L+ L P+++ ++ LRFG+ DGK SL+++G LS+ERVR
Sbjct: 245 ESPDTNVTYELLKQDIKDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVR 304
Query: 447 QLESRALYRLK 457
QLE +AL L+
Sbjct: 305 QLERQALTHLR 315
>gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa]
Length = 427
Score = 94.7 bits (234), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 51/116 (43%), Positives = 75/116 (64%), Gaps = 2/116 (1%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSG 326
+LL+A+EE EL QI+DL++LE K +L ++ GREP EWA A G +S + G
Sbjct: 116 ELLSAEEEIELSRQIRDLVQLETVKKRLAARIGREPREDEWAMAAGTQPGPAFQSRILKG 175
Query: 327 NSSREKLINANLRLVVHVAKQYQGR-GISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+R +L+ +NLR VV +AK+Y + + L DL+QEGS+GLMK+ E+F G +F
Sbjct: 176 RRARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFDLDKGFKF 231
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 51/69 (73%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD +++ ++R+ + N+L L +ER I+R+R+G+ DG PK+L E+G I GL++ER+RQ+
Sbjct: 339 PDEQLERTMLREDLENVLATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIRQI 398
Query: 449 ESRALYRLK 457
E A+ +LK
Sbjct: 399 EQSAMRKLK 407
>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 = 94.7 bits (234), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEALVKKLRREPSLEEWAAHVKK 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SESEVKQTVQQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 67.4 bits (163), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 51/78 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ +RQ + NLL+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYMTQEFLRQDLNNLLSELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>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 = 94.7 bits (234), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 76/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP+L EWA +
Sbjct: 43 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMSLLDAKEALAKKLEREPSLPEWADHVHQ 102
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 103 SETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 162
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 163 PTRGYKFST 171
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + LL L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 272 PEYYTTQEFLRQDLNTLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 331
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 332 EHQALAHLRRRRANVKEY 349
>gi|425445125|ref|ZP_18825161.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9443]
gi|389734954|emb|CCI01463.1| putative RNA polymerase sigma-C factor [Microcystis aeruginosa PCC
9443]
Length = 435
Score = 94.7 bits (234), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 60/199 (30%), Positives = 101/199 (50%), Gaps = 35/199 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
AQ+Q ++L + +L ++ P+L WAK ++ +LK+ L +G
Sbjct: 125 AQVQQFVKLIAVRDQLTARSAHRPSLERWAKTAQITVSELKNALKAGKQRWAHLAGLEVG 184
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 185 ELEEIIALGTHAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 244
Query: 378 GCRFANTGV------EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ I+ Q +++R H+ L + +R I ++R G+
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQIR-----GRTA 299
Query: 430 SLSEVGNIFGLSKERVRQL 448
++ E+ L+ E VR++
Sbjct: 300 TVEEIAQELALTPEAVREV 318
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 45/62 (72%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+ES+AL +L+
Sbjct: 360 LQRDIRELLADLTTREREVIELRYGFLDGKSHSLADIGRTLELSRERVRQIESKALQKLR 419
Query: 458 QS 459
QS
Sbjct: 420 QS 421
>gi|87123422|ref|ZP_01079273.1| Putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. RS9917]
gi|86169142|gb|EAQ70398.1| Putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. RS9917]
Length = 376
Score = 94.7 bits (234), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 78/242 (32%), Positives = 120/242 (49%), Gaps = 53/242 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ---DLIRLEKEKSKLQ-------------- 296
ND LRL+L LL+ +EE L Q+Q L+R E+E ++
Sbjct: 19 NDLLRLYLQDIGRVNLLSNEEEVLLARQVQRREQLLRQERELAEAHPVLRRLLELEELQQ 78
Query: 297 ---SQFGREPTLIEWAKAIGLSCRDL----------------------KSELHSGNSSRE 331
+ PT EWA+A G+S +L K++L G +R+
Sbjct: 79 REANHHCHWPTRQEWARAAGMSVAELQTILNEGYGTWSRLIELEPCTLKAQLRDGRRARD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 139 RMIAANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ ++G+ +L+++ GLS+E
Sbjct: 199 GI-TRAIATQSRTIRLPV-HVTEKLNRIKR--VQQEIASQEGRIATLTDLAQKLGLSEET 254
Query: 445 VR 446
VR
Sbjct: 255 VR 256
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 65/261 (24%), Positives = 119/261 (45%), Gaps = 54/261 (20%)
Query: 218 RRSKKRKVS---KPQVTNHETYNSRKASVKKKLSEG-------FDRNDPLRLF------- 260
RR++ R ++ + VT + Y R + + EG ++ DP R F
Sbjct: 134 RRARDRMIAANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAY 193
Query: 261 LWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
W + TR + T L + + L R+++ + ++ SQ GR TL + A+ +GLS
Sbjct: 194 WWIRQGITRAIATQSRTIRLPVHVTEKLNRIKRVQQEIASQEGRIATLTDLAQKLGLSEE 253
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++ L + ++ L + V K+ + L DLL++G
Sbjct: 254 TVRLTLMR--------VPRSVSLELRVGKE---QDTQLGDLLEDGKA------------- 289
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
P+ + + + + +LL L +E ++RLRFG+++ P +L+++G
Sbjct: 290 ----------TPEQELTRDALHHDLEHLLDELTDREAAVIRLRFGLDNDTPCTLAQIGET 339
Query: 438 FGLSKERVRQLESRALYRLKQ 458
LS+ERVRQ+E+RAL +L+Q
Sbjct: 340 MALSRERVRQIETRALLKLRQ 360
>gi|158337702|ref|YP_001518878.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158307943|gb|ABW29560.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 94.7 bits (234), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 66/117 (56%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL +EE Q+Q + L+ K LQ REPT EWA +S L+ EL G+
Sbjct: 23 LLNHEEEIIFGKQVQRFVALQDLKQDLQEHLDREPTQAEWADKAEISVSQLQKELKLGHK 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
+ K++ +NLRLVV +AK+Y + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYA 139
Score = 47.8 bits (112), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 50/217 (23%), Positives = 95/217 (43%), Gaps = 44/217 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP++ + W + TR + + L I + L +L K + +L
Sbjct: 120 LQRGVEKFDPMKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R+PT+ E A + L+ + ++ L+ S + L + + Q + L
Sbjct: 180 QKLHRDPTVQELAVEMDLAPKKIEDYLNYARRS--------ISLDIQIGDQ---QNTELW 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
+LL++ + E PD V +R + LL L+P++R +
Sbjct: 229 ELLEDPN-----------------------ESPDTYVTASSLRSDLAKLLQDLSPQQREV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+ LR+G+ D P +L++VG +S+E VR++E A
Sbjct: 266 ITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
>gi|116074180|ref|ZP_01471442.1| Possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. RS9916]
gi|116069485|gb|EAU75237.1| Possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. RS9916]
Length = 364
Score = 94.7 bits (234), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 77/244 (31%), Positives = 114/244 (46%), Gaps = 57/244 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQ--------------------IQDLIRLEKEKS 293
ND LRL+L LLT +EE L Q IQ L+ LE+ +
Sbjct: 7 NDLLRLYLQDIGRVDLLTNEEEVLLARQVQQREVLLAEERALAGEHPTIQRLLELEQLQQ 66
Query: 294 KLQSQFGREPTLIEWAKAIGLS----------------------CRDLKSELHSGNSSRE 331
+ + PT EWA+A GL+ ++L+ L G +R+
Sbjct: 67 REANHVCHWPTKKEWAEAAGLTQEQLTTVLREGYGIWSDHSALESKELQKRLREGRRARD 126
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 127 RMIQANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 186
Query: 385 GVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
G+ I+ Q + +R HV L + V+ +G+ S+S++ G+S+
Sbjct: 187 GI-TRAIATQSRTIRLPVHVTEKLNRIKK-----VQQEIATNEGRIASISDLSRALGISE 240
Query: 443 ERVR 446
E VR
Sbjct: 241 ETVR 244
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 47/70 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ K + + LL L +E ++R RFG+ED P +L+E+G GLS+ERVRQ+
Sbjct: 279 PEQTLTKNSLHSDLEELLGELTAREAEVIRRRFGLEDDTPLTLAEIGETMGLSRERVRQI 338
Query: 449 ESRALYRLKQ 458
E+RAL +L+Q
Sbjct: 339 ETRALLKLRQ 348
>gi|291566702|dbj|BAI88974.1| group 2 RNA polymerase sigma factor SigB [Arthrospira platensis
NIES-39]
Length = 334
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE ++Q ++ L + + +L + R+PT EW+ GL
Sbjct: 25 DAVRTYLHEIGRVPLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGL 84
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ ++ G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 85 SESEMTDIINRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 144
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 145 PMRGYKFST 153
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 60/222 (27%), Positives = 105/222 (47%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L ++++ + +L
Sbjct: 136 LERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELF 195
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q+GR T E AKA+ L ++ L + ++ +LR+ + L
Sbjct: 196 QQYGRNATPTEIAKALDLEPSQIRDYLLASRHP----VSLDLRV-------GDNQDTELQ 244
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ S D V +QL+RQ +++++ L P++R +
Sbjct: 245 DLLEDESAS-----------------------ADSYVTQQLLRQDLKDMMADLTPQQREV 281
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 282 LTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLRR 323
>gi|220906009|ref|YP_002481320.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7425]
gi|219862620|gb|ACL42959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 372
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 79/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D + FL LL EE EL +++ L+ L + K +L Q GR TL E A A+
Sbjct: 59 DDAVGAFLKDMARYPLLQPSEEIELARRVKYLVELSELKDQLGRQLGRSATLPEVAAAMN 118
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ + L+ ++ G ++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF
Sbjct: 119 LTEQQLQIRIYRGQVAKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRATEKF 178
Query: 374 KPQAGCRFAN 383
P+ G +F+
Sbjct: 179 DPEKGFKFST 188
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 51/72 (70%), Gaps = 1/72 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTL-LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + LL L L +ER ++ LR+G+ G+P +L EV +F LS+ERVRQ
Sbjct: 290 PEKQMGEVMMRQEISQLLDLVLTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQ 349
Query: 448 LESRALYRLKQS 459
++++A+ +L++S
Sbjct: 350 IQNKAIGKLRRS 361
>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 = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 48/128 (37%), Positives = 78/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE ++Q ++ L + + +L + R+PT EW+ GL
Sbjct: 23 DAVRTYLHEIGRVPLLTREEEIIYGKKVQQMMNLLEVRDELTKELDRDPTPEEWSAKAGL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ ++ G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 83 SESEMTDIINRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 142
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 143 PMRGYKFS 150
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 60/222 (27%), Positives = 105/222 (47%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L ++++ + +L
Sbjct: 134 LERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELF 193
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q+GR T E AKA+ L ++ L + ++ +LR+ + L
Sbjct: 194 QQYGRNATPTEIAKALDLEPSQIRDYLLASRHP----VSLDLRV-------GDNQDTELQ 242
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ S D V +QL+RQ +++++ L P++R +
Sbjct: 243 DLLEDESAS-----------------------ADSYVTQQLLRQDLKDMMADLTPQQREV 279
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 280 LTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLRR 321
>gi|113474616|ref|YP_720677.1| RNA polymerase sigma factor [Trichodesmium erythraeum IMS101]
gi|110165664|gb|ABG50204.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101]
Length = 336
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 56/152 (36%), Positives = 88/152 (57%), Gaps = 1/152 (0%)
Query: 232 NHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE 291
N E N +K K + + D +R +L LLT +EE Q+Q +++ +
Sbjct: 5 NQENKNQKKTQTKFGPT-TYSSMDTVRTYLHEIGRVPLLTREEEIVYGKQVQQMMQFLEL 63
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
K KL+ + R TL+EWA+ + +S + LK + G +++K+I ANLRLVV +AK+YQ R
Sbjct: 64 KEKLEEKLNRTATLLEWAEHLLVSEKVLKQAIKQGQRAKQKMIEANLRLVVAIAKKYQKR 123
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ DL+QEG++GL + VEKF P G +F+
Sbjct: 124 NMEFLDLIQEGTLGLERGVEKFDPTRGYKFST 155
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/69 (47%), Positives = 49/69 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + +L+RQ + LL L+ ++R ++ LRFG+EDGK SL++VG+ LS+ERVRQL
Sbjct: 256 PDDYITGELLRQDINTLLAELSEQQRRVLVLRFGLEDGKEMSLAKVGDKLQLSRERVRQL 315
Query: 449 ESRALYRLK 457
E +AL L+
Sbjct: 316 EHQALAFLR 324
>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 = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 47/115 (40%), Positives = 71/115 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL Q++ L +E+ K+ L GR P L + A A LS ++ L G +
Sbjct: 94 LLKPDEEIELARQVRFLGEMEELKASLTDSLGRRPLLADIAHAFDLSEAQVRQNLQLGRA 153
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 154 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPDKGYKFST 208
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 44/181 (24%), Positives = 93/181 (51%), Gaps = 34/181 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K L+ + R PT +E A+++ ++ +L R + ++ N
Sbjct: 233 IHIVEKLNKLKKAHRDLRRELQRNPTEVELAQSLDMTP----DQLRGLQQVRRRSLSLNH 288
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G L +LL++G+ + P+ + + +M
Sbjct: 289 RV-------GKGEDTELMELLEDGN----------------------TQSPESQISESMM 319
Query: 399 RQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R + ++L +L +E+ I+ LR+G+ G+ +L EVG++F LS+ERVRQ++++A+ +L+
Sbjct: 320 RHEITSVLAEVLTEREKDIITLRYGLATGETHTLEEVGSMFNLSRERVRQIQTKAMRKLR 379
Query: 458 Q 458
+
Sbjct: 380 R 380
>gi|125543279|gb|EAY89418.1| hypothetical protein OsI_10924 [Oryza sativa Indica Group]
Length = 540
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 45/116 (38%), Positives = 71/116 (61%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTA +E E IQDL++LE + +L G EPT +WA+A G L+ L+ G
Sbjct: 238 RLLTAKQEVEFSQGIQDLLKLEAIQKELAHYNGGEPTFSQWAEAAGTDENTLRKRLNYGI 297
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
S + ++ +N+RLV+ +A++++G G+ DL+QEG GL++ EKF G RF+
Sbjct: 298 SCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFST 353
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 58/104 (55%), Gaps = 7/104 (6%)
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ-------KQLMRQHVRNLLTLLNPKE 413
E +M L K + GC PD S + + LM++ V L L+P+E
Sbjct: 419 EAAMSLPKYTVSLTSKVGCTDMTYQEITPDTSTETAEEMLHRWLMKEDVDRALDGLSPRE 478
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R ++R RFG++DG+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 479 RQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLR 522
>gi|443316147|ref|ZP_21045603.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442784247|gb|ELR94131.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 318
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 45/115 (39%), Positives = 72/115 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q++ ++ + + L G EP+ WA+ GL L++++ +G +
Sbjct: 22 LLTHEQEINYGKQVKQMMVVLALREDLMEPLGAEPSWAAWAEETGLDVETLQAQVAAGEA 81
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV +AK+Y R + L DL+QEGS+GL ++VEKF P G RF+
Sbjct: 82 AKSKMIEANLRLVVSIAKKYTDRNLDLLDLVQEGSIGLNRAVEKFDPAKGYRFST 136
Score = 55.8 bits (133), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 43/61 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + LL L ++R ++ LRFG++DG SL++VG + +S+ERVRQL+ +A+ +L+
Sbjct: 246 LRSDLEGLLAGLTAQQREVLILRFGLQDGNALSLAKVGKLLNISRERVRQLQQQAVNKLR 305
Query: 458 Q 458
Q
Sbjct: 306 Q 306
>gi|428772429|ref|YP_007164217.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanobacterium
stanieri PCC 7202]
gi|428686708|gb|AFZ46568.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanobacterium
stanieri PCC 7202]
Length = 363
Score = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 74/115 (64%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC-RDLKSELHSGN 327
LLTA+EE +L ++ L E+ + KL + R P+ +E A A+GL R L + L+ G
Sbjct: 64 LLTAEEEVDLAQSVKFLTDCEETQQKLHHKLQRTPSKMELAHAMGLETERQLDNRLYKGR 123
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 124 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFS 178
Score = 58.2 bits (139), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 52/71 (73%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +M Q + ++L+ +L+ +E+ ++ LR+G+ KP +L EVG IF LS+ERVRQ
Sbjct: 281 PEEKMNEAMMHQEIVSVLSDVLSEREKEVIILRYGLSSCKPHTLEEVGQIFDLSRERVRQ 340
Query: 448 LESRALYRLKQ 458
++++A+ +L++
Sbjct: 341 IQTKAMRKLRR 351
>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 = 94.4 bits (233), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 74/129 (57%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REPT+ EW +
Sbjct: 21 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMALLDAKEALVKKLRREPTMEEWTAKVNT 80
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L + G +++K+I ANLRLVV +AK+YQ R + DL+QEG+MGL + VEKF
Sbjct: 81 SEAELNDLIRKGQRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTMGLERGVEKFD 140
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 141 PIRGYKFST 149
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 60/230 (26%), Positives = 102/230 (44%), Gaps = 44/230 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L +++K + +L
Sbjct: 132 LERGVEKFDPIRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKVQRELA 191
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
GR P +E A+A+ L ++ L+ L + L V V + L
Sbjct: 192 QTLGRSPNAVEIAEALELEPAQIREYLN--------LARQPVSLDVRVGD---NQDTELQ 240
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ + P+ + ++ +RQ + LL+ L P++R +
Sbjct: 241 DLLEDDGIS-----------------------PENYMTQESLRQDLDTLLSELTPQQREV 277
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 466
+ LRFG++DG SL++VG LS+ERVRQLE +AL L++ Y
Sbjct: 278 LNLRFGLQDGNELSLAKVGERLNLSRERVRQLEHQALAHLRRRRANVQEY 327
>gi|427724985|ref|YP_007072262.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptolyngbya sp.
PCC 7376]
gi|427356705|gb|AFY39428.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptolyngbya sp.
PCC 7376]
Length = 373
Score = 94.0 bits (232), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 46/116 (39%), Positives = 74/116 (63%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL DEE +L ++ L E+++ L + GR P+ EWA + + + R+L S+L+ G
Sbjct: 74 LLKPDEEIQLAHSVKFLNDAEEKRLALTEELGRSPSKEEWAAVLKIATIRELNSQLYKGR 133
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 134 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFST 189
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 94/181 (51%), Gaps = 34/181 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I ++ L +L+K + L+ + R P+ E A+ + +S +LH R + ++ N
Sbjct: 214 IHIVEKLNKLKKAQRTLKQKLQRNPSETELAQELDISA----DQLHHLLQLRRQSLSLNH 269
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+ +G L DLL++ G+++P+ + + +M
Sbjct: 270 RV-------GKGEDTELVDLLEDD----------------------GLQLPEERMSEAMM 300
Query: 399 RQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
RQ + ++L +L +E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L+
Sbjct: 301 RQELWDVLGDVLTDREKEVIALRYGLSSEQPHTLEEVGGIFNLSRERVRQIQSKAMRKLR 360
Query: 458 Q 458
+
Sbjct: 361 R 361
>gi|428208314|ref|YP_007092667.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chroococcidiopsis
thermalis PCC 7203]
gi|428010235|gb|AFY88798.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chroococcidiopsis
thermalis PCC 7203]
Length = 318
Score = 94.0 bits (232), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 77/130 (59%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L L + +L ++ GREPTL EW++A
Sbjct: 8 TDLVRTYLREIGRVPLLTHEQEIVYGKQVQRLSTLYALQEELVAKLGREPTLEEWSEAAR 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ L + + G ++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 IDKTALSTAIAEGEIAKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 57.8 bits (138), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/176 (25%), Positives = 87/176 (49%), Gaps = 34/176 (19%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +++K + +L GR P+++E A A+ L+ + + RE L A L L +
Sbjct: 166 EKLNKIKKAQRQLSQNLGRAPSIVELATALELTPKQV----------REYLERARLPLSL 215
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ + + L +LL++ S+ P+ V + + +
Sbjct: 216 DL-RVGDNQDTELGELLEDTSLS-----------------------PEEFVTESCLSTDI 251
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 252 EKLMADLTPQQREVLSLRFGLADGQAMTLAKIGDRLNISRERVRQIEREALTKLRK 307
>gi|427703469|ref|YP_007046691.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
gi|427346637|gb|AFY29350.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
Length = 356
Score = 94.0 bits (232), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/116 (42%), Positives = 78/116 (67%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGN 327
LL+ ++E L Q+Q+L+ LE+ + +L+ + G +P+ E A A GL L+ LH+G
Sbjct: 60 LLSHEQEITLGRQVQELMALEELREELKMRAGGTDPSQQELAAAAGLRPEVLRKRLHAGR 119
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 120 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFST 175
Score = 44.7 bits (104), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 41/66 (62%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V + ++ +R LL L + ++++R+GI+ +P SL+ +G I G+S++RVR LE
Sbjct: 280 VDGECLKGDLRALLEQLPELQGRVLKMRYGIDGEEPMSLTGIGRILGISRDRVRNLERDG 339
Query: 453 LYRLKQ 458
L L++
Sbjct: 340 LAGLRR 345
>gi|158336372|ref|YP_001517546.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158306613|gb|ABW28230.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 94.0 bits (232), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 69/117 (58%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ++E Q+Q L L++ K +LQ REPT EWA+ +S L+ EL G+
Sbjct: 23 LLNHEQEVIFGKQVQRLTALQEMKQELQDHLDREPTQKEWAEKAQVSVAQLQKELKLGHK 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
+ K++ +NLRLVV +AK+Y + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYA 139
Score = 46.2 bits (108), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 49/217 (22%), Positives = 94/217 (43%), Gaps = 44/217 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP++ + W + TR + + L I + L +L K + +L
Sbjct: 120 LQRGVEKFDPMKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R+PT+ E A + L+ + ++ L+ S + L + + Q + L
Sbjct: 180 QKLHRDPTVQELAVEMDLAPKKIEDYLNYARRS--------ISLDIQIGDQ---QNTELW 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
+LL++ + E PD +R + LL L+P++R +
Sbjct: 229 ELLEDPN-----------------------ESPDTYATASSLRSDLAKLLQDLSPQQREV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+ LR+G+ D P +L++VG +S+E VR++E A
Sbjct: 266 ITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
>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 = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 83/147 (56%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
S+ +K K +E D + ++L LL+ ++E Q+Q ++ + K +L
Sbjct: 5 TSQVTKLKSKNNEFSYTADAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELA 64
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ REPTL EWA + L L +L G +++K+I ANLRLVV +AK+YQ R +
Sbjct: 65 EKLQREPTLQEWADKMQLKEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFL 124
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL + VEKF P G +F+
Sbjct: 125 DLIQEGALGLERGVEKFDPTLGYKFST 151
Score = 53.5 bits (127), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 45/69 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ +++L+ Q + NLL L P+++ ++ LRFG+ G +L ++ G+S+ERVRQ+
Sbjct: 252 PERYAERELLYQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQV 311
Query: 449 ESRALYRLK 457
E +AL L+
Sbjct: 312 EKQALTLLR 320
>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 = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE ++Q ++ L + + +L + +PT EW+ GL
Sbjct: 23 DAVRTYLHEIGRVPLLTREEEIIYGKKVQQMMSLLEMRDELTKELDHDPTAAEWSAKAGL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ ++ G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 83 SESEMTEIMNRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 142
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 143 PMRGYKFS 150
Score = 68.6 bits (166), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 61/222 (27%), Positives = 105/222 (47%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L ++++ + +L
Sbjct: 134 LERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELF 193
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q+GR T E AKA+ L ++ L + ++ +LR+ + L
Sbjct: 194 QQYGRNATPTEIAKALDLEPSQIRDYLLASRHP----VSLDLRVG-------DNQDTELQ 242
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ S D V +QL+RQ +++L+ L P++R +
Sbjct: 243 DLLEDESAS-----------------------ADNYVTQQLLRQDLKDLMADLTPQQREV 279
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 280 LTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 321
>gi|359459297|ref|ZP_09247860.1| RNA polymerase sigma-70 factor [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 69/117 (58%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ++E Q+Q L L++ K +LQ REPT EWA+ +S L+ EL G+
Sbjct: 23 LLNHEQEVIFGKQVQRLTALQEMKQELQDHLDREPTQQEWAEKAQVSVAQLQKELKLGHK 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
+ K++ +NLRLVV +AK+Y + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKVEFLDLIQEGTIGLQRGVEKFDPMKGYRFSTYA 139
Score = 46.2 bits (108), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 49/217 (22%), Positives = 94/217 (43%), Gaps = 44/217 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP++ + W + TR + + L I + L +L K + +L
Sbjct: 120 LQRGVEKFDPMKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLSKLRKVRRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R+PT+ E A + L+ + ++ L+ S + L + + Q + L
Sbjct: 180 QKLHRDPTVQELAVEMDLAPKKIEDYLNYARRS--------ISLDIQIGDQ---QNTELW 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
+LL++ + E PD +R + LL L+P++R +
Sbjct: 229 ELLEDPN-----------------------ESPDTYATASSLRSDLAKLLQDLSPQQREV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+ LR+G+ D P +L++VG +S+E VR++E A
Sbjct: 266 ITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAF 302
>gi|428311648|ref|YP_007122625.1| RNA polymerase, sigma subunit, RpsC/SigC [Microcoleus sp. PCC 7113]
gi|428253260|gb|AFZ19219.1| RNA polymerase, sigma subunit, RpsC/SigC [Microcoleus sp. PCC 7113]
Length = 417
Score = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 63/198 (31%), Positives = 99/198 (50%), Gaps = 37/198 (18%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG--------------- 326
I+ + L + +L SQ G P+L WA G+ DLK L +G
Sbjct: 109 IERYVHLIETHDRLVSQLGHRPSLERWAATAGVEVSDLKPILAAGKQRWAELAGLSVKEL 168
Query: 327 -------NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
N ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 169 EQIQSQGNRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 228
Query: 380 RFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
RF+ G+ I+ Q + +R H+ L + +R I + E G+ +
Sbjct: 229 RFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQRKISQ-----EKGRTAT 282
Query: 431 LSEVGNIFGLSKERVRQL 448
+ ++ ++KE+VR++
Sbjct: 283 IEDIALELEMTKEQVREV 300
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ +++ ++ LL L +ER ++R+RFG+ DG P SL+E+G LS+ERVRQ+
Sbjct: 333 PEEVLMREALQRDLQQLLADLTSRERDVIRMRFGLGDGHPYSLAEIGRALELSRERVRQI 392
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 393 EAKALQKLRQ 402
>gi|86607249|ref|YP_476012.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab]
gi|86555791|gb|ABD00749.1| RNA polymerase sigma factor, group 1 [Synechococcus sp. JA-3-3Ab]
Length = 361
Score = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 46/110 (41%), Positives = 73/110 (66%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE EL +IQ + +++ + + + Q+G++P+ E A A+ + L+S + G ++ KL
Sbjct: 69 EEIELSRKIQQKLLIDQARREWRQQWGQDPSDEELAAALQIPVSTLRSRIRQGEQAQRKL 128
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
INANLRLVV VAK+Y RG+ DL+QEG+MGL+++ EKF + G RF+
Sbjct: 129 INANLRLVVSVAKKYLNRGVPFLDLIQEGNMGLIRATEKFNAERGFRFST 178
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 54/193 (27%), Positives = 88/193 (45%), Gaps = 34/193 (17%)
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + L + D +RL K ++ L GR PT E A+A+G+ + L+
Sbjct: 189 TRCIANQARTIRLPVHMVDKVRLLKRTNRELMKARGRRPTEAELAEALGIKVKKLRMIQQ 248
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
+ L L V V ++ + R L DLL +
Sbjct: 249 AAALP--------LSLDVPVGQEGESR---LGDLLPDERQ-------------------- 277
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
E P + Q +RQ VR+ + L P ER ++ LR+G++ + ++L EVG+ F L++ER
Sbjct: 278 --EQPFEEILVQSLRQDVRSAMQALKPIERQVLELRYGLDGQRARTLREVGDHFNLTRER 335
Query: 445 VRQLESRALYRLK 457
+RQ+E AL +L+
Sbjct: 336 IRQIERDALRKLR 348
>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 = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 76/130 (58%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL+ ++E Q+Q ++ L+ + L+ R PT EWA+A
Sbjct: 16 GDMVRTYLHEIGRVPLLSHEQELCYGKQVQQMMLLKGIEESLEQTLNRPPTKTEWAQAAT 75
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+S +L L G +++K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 76 ISEAELDRVLRQGRQAKQKMIEANLRLVVAIAKKYQKRNLEFLDLIQEGSLGLERGVEKF 135
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 136 DPSRGYKFST 145
Score = 56.6 bits (135), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 44/65 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ +Q +RQ +++ L L ++R ++ LRFG+E G SL++VG I LS+ERVRQL
Sbjct: 246 PEKYTVQQSLRQELQSTLDELTRQQREVINLRFGLEGGTELSLAKVGEILNLSRERVRQL 305
Query: 449 ESRAL 453
E +AL
Sbjct: 306 EHQAL 310
>gi|16331621|ref|NP_442349.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
gi|383323363|ref|YP_005384217.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383326532|ref|YP_005387386.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383492416|ref|YP_005410093.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384437684|ref|YP_005652409.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451815773|ref|YP_007452225.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|2500787|sp|Q59996.1|RPSC_SYNY3 RecName: Full=Probable RNA polymerase sigma-C factor
gi|1001684|dbj|BAA10419.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339274717|dbj|BAK51204.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359272683|dbj|BAL30202.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359275853|dbj|BAL33371.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359279023|dbj|BAL36540.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|451781742|gb|AGF52711.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 404
Score = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 73/246 (29%), Positives = 112/246 (45%), Gaps = 57/246 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL DEE + Q+Q +RL + +++
Sbjct: 48 TDLVRLYLQDIGRIPLLKRDEEVHIAQQVQSYLRLVEIQNRAAESDAAIDQYQTAIAVHD 107
Query: 295 -LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSRE 331
L Q G P+ WAK +G + LK L SG +++
Sbjct: 108 QLLVQLGHRPSYERWAKILGQTVATLKQTLKSGKKRWAELAGLTVEELENIEKQGITAKA 167
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 168 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQ 227
Query: 385 GVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
G+ I+ Q +++R H+ L + +R I + E G + EV G++
Sbjct: 228 GI-TRAIATQSRMIRLPVHITEKLNKIKRAQRKISQ-----EKGHTPKIDEVAEELGMTP 281
Query: 443 ERVRQL 448
E+VR++
Sbjct: 282 EQVREV 287
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 50/73 (68%)
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
T + P+ + ++ ++ ++ +L L P+E+ ++ LRFG +DG SLSE+G I LS+E
Sbjct: 315 TDTQSPEDELMREALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRE 374
Query: 444 RVRQLESRALYRL 456
RVRQ+E++AL +L
Sbjct: 375 RVRQIEAKALQKL 387
>gi|158334481|ref|YP_001515653.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
gi|158304722|gb|ABW26339.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 318
Score = 93.6 bits (231), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 46/117 (39%), Positives = 68/117 (58%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ++E Q+Q +I L++ K +L Q REP L EWA + L+ EL G +
Sbjct: 23 LLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLSEWADQADIPVSQLQKELKLGQT 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
+ K++ +NLRLVV +AK+Y + DL+QEG++GL + VEKF P G RF+
Sbjct: 83 ANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKFDPTKGYRFSTYA 139
Score = 48.1 bits (113), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 54/221 (24%), Positives = 96/221 (43%), Gaps = 44/221 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP + + W + TR + + L I + L +L K K +L
Sbjct: 120 LQRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLNKLRKVKRQLS 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R+PT+ E A + LS + +++ L S + L V V Q + L
Sbjct: 180 LKLHRDPTVAELATEMELSPKKVEAFLSYARHS--------ISLDVQVGDQ---QNTELW 228
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
+LL++ P A P+ ++ + LL +LNP++R +
Sbjct: 229 ELLED-------------PHAS----------PEDYATASYLQSDLAKLLNVLNPQQREV 265
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ LR+G+ D P +L++VG +S+E VR++E A L+
Sbjct: 266 ITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFQLLR 306
>gi|443324962|ref|ZP_21053681.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442795431|gb|ELS04799.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 328
Score = 93.2 bits (230), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/115 (42%), Positives = 74/115 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q ++ L +KS+L+ Q RE +L EW+++ +S +L L G
Sbjct: 33 LLTNEQEIVYGKQVQAMMALLIKKSELEKQLEREISLQEWSESAQISEPELNRLLKLGQR 92
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F+
Sbjct: 93 AKSKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPMKGYKFST 147
Score = 68.6 bits (166), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 33/70 (47%), Positives = 50/70 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD ++L+RQ + NL+ L P +R ++ LRFG+EDGK SL+++G LS+ERVRQL
Sbjct: 248 PDKYATQELLRQDLYNLMADLTPPQREVISLRFGLEDGKELSLAKIGQRMSLSRERVRQL 307
Query: 449 ESRALYRLKQ 458
E +AL +L++
Sbjct: 308 EHQALAQLRR 317
>gi|443309777|ref|ZP_21039464.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442780170|gb|ELR90376.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 319
Score = 93.2 bits (230), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 52/131 (39%), Positives = 79/131 (60%), Gaps = 1/131 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L L+ + L +++G+EPT EWAKA
Sbjct: 8 TDLVRTYLREIGRVPLLTHEQEILYGKQVQRLSALQTVREALLAEYGQEPTPDEWAKASD 67
Query: 314 LS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
L+ +L + +G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEK
Sbjct: 68 LADSEELAKIIAAGELAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEK 127
Query: 373 FKPQAGCRFAN 383
F P G RF+
Sbjct: 128 FDPTKGYRFST 138
Score = 52.0 bits (123), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 40/54 (74%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
L+ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 255 LMADLTPQQREVLILRFGLSDGQALTLAKIGDRLNISRERVRQIEREALTKLRK 308
>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 = 93.2 bits (230), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 75/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIIFGKQVQQMMTLLDAKEDLAKKLHREPSLEEWANLVHQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 PETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + LL L P++R +V LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNTLLAELTPQQREVVALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>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 = 93.2 bits (230), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 75/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + EP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLLDAKEVLAKKLDHEPSLPEWAAHVNQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++K + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETEVKQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PMRGYKFST 146
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|428301225|ref|YP_007139531.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428237769|gb|AFZ03559.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 318
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 75/130 (57%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL+ +EE + Q+Q + L + + L + G EPTL EWA A
Sbjct: 8 TDLVRTYLREIGKVPLLSHEEEIKFGKQVQRAVVLNEVRESLALKLGHEPTLEEWAIASE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L +L + + ++ +++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 68 LEPLELNQAIADADEAKRRMVEANLRLVVSVAKKYLKRNVDLLDLIQEGSIGMQRGVEKF 127
Query: 374 KPQAGCRFAN 383
P G RF+
Sbjct: 128 DPTKGYRFST 137
Score = 58.2 bits (139), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 51/82 (62%), Gaps = 1/82 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG P+ V + + + L+ L P++R ++ +RFG++DG+ +L+ +G I
Sbjct: 228 GEMLEDTGAS-PEEFVMQSSLSNDLERLMANLTPQQREVISMRFGLKDGQSMTLARIGEI 286
Query: 438 FGLSKERVRQLESRALYRLKQS 459
+S+ERVRQ+E AL +L++S
Sbjct: 287 LNISRERVRQIEREALTKLRKS 308
>gi|194476921|ref|YP_002049100.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Paulinella chromatophora]
gi|171191928|gb|ACB42890.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Paulinella chromatophora]
Length = 321
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 79/115 (68%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E L Q+Q+LI +++ + KL+ + G +PT E A ++ LS +K ++ G
Sbjct: 27 LLTHEQEITLGRQVQELICIQETEQKLELKNGIKPTQEELANSLDLSINQVKRKIIHGKR 86
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++++NLRLVV +AK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 87 AKEQMVSSNLRLVVSIAKKYTKRSMELLDLVQEGTIGLIRGVEKFDPTRGYKFST 141
Score = 55.8 bits (133), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 48/188 (25%), Positives = 92/188 (48%), Gaps = 36/188 (19%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
++L +L+K + L GR PT+IE AK I L+ +++K L+
Sbjct: 170 EELNKLKKAQRDLSQSLGRTPTVIELAKMIKLTEKEVKE------------------LLC 211
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
H AKQ +SL + +G ++ + +E+P+ V ++ +R+ +
Sbjct: 212 H-AKQ----PVSLEMKIGDGDDTVL-----------LELLPSEIELPEEYVNRKCLRRDL 255
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
L+ L + I+++R+G + +P +L+ +G + G+S++RVR LE + RL++
Sbjct: 256 LALVEQLPEIQVRILKMRYGFDSTEPLTLTGIGRVLGMSRDRVRNLERDGINRLQKL--S 313
Query: 463 KASYGYAD 470
K+ GY D
Sbjct: 314 KSIEGYLD 321
>gi|87300555|ref|ZP_01083397.1| Putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 5701]
gi|87284426|gb|EAQ76378.1| Putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 5701]
Length = 398
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 62/169 (36%), Positives = 92/169 (54%), Gaps = 19/169 (11%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + LS DL+ L G +R+++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 137 WAACLDLSLSDLQQRLLRGRRARDRMIQANLRLVVAVAKKYQKRGVELLDLVQEGTLGLE 196
Query: 368 KSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVR 418
++VEK+ P G RF+ GV I+ Q + +R HV L + +R
Sbjct: 197 RAVEKYDPTRGFRFSTYAYWWIRQGV-TRAIATQSRTIRLPVHVTEKLNRIKKAQR---- 251
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYG 467
+F + G+ SL+E+ S+E VR L R+ +S+ +A G
Sbjct: 252 -QFASDHGRTASLAELAEALQWSEEAVRL----TLLRVPRSISLEAKVG 295
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 51/72 (70%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+ P+ S+ +Q + + LL L+ +E ++RLRFG+ D P++L+++G LS+ERVR
Sbjct: 311 DTPEQSLTRQQLHSDLDALLDELSEREAEVIRLRFGLADDTPRTLAQIGEGMQLSRERVR 370
Query: 447 QLESRALYRLKQ 458
Q+E+RAL++L+Q
Sbjct: 371 QIETRALHKLRQ 382
>gi|452821943|gb|EME28967.1| RNA polymerase primary sigma factor [Galdieria sulphuraria]
Length = 540
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 65/199 (32%), Positives = 106/199 (53%), Gaps = 15/199 (7%)
Query: 260 FLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDL 319
++ + +LL+ +EE EL ++ RL + ++ +FGR+ +L EWA G+S +DL
Sbjct: 222 YIHAIDKSRLLSQEEEAELANYLKKQTRLIDIQQRMMQKFGRKLSLEEWAIRAGMSVQDL 281
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQ-------GRGISLHDLLQEGSMGLMKSVEK 372
+ GN+++EKLI ANLRLV +A ++ + + L DL+QEG +GL+++ +K
Sbjct: 282 HDAIILGNNAKEKLITANLRLVHSIASRFAHDSNKNFHKPVQLVDLIQEGILGLIQATDK 341
Query: 373 FKPQAGCRFANTGVEIPDISVQKQL--MRQHVR---NLLTLLNPKERCIVRLRFGIEDGK 427
F P G RF+ S+ K L + VR +L L N ++ V L K
Sbjct: 342 FDPSYGWRFSTFATWWIRASISKYLNEYNRSVRVPAKVLALFNQSKKVAVELE---SKKK 398
Query: 428 PKSLSEVGNIFGLSKERVR 446
S SEV ++ G+S R+R
Sbjct: 399 VPSESEVCSLLGVSSSRLR 417
Score = 43.5 bits (101), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 31/51 (60%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L P E + LR+G+ DG+ +SL E G I S+ERVRQL + +L+ S
Sbjct: 479 LCPMETRALLLRYGLRDGQFRSLEECGRIMSCSRERVRQLLLSGITKLRNS 529
>gi|407960748|dbj|BAM53988.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
Length = 385
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 73/246 (29%), Positives = 112/246 (45%), Gaps = 57/246 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL DEE + Q+Q +RL + +++
Sbjct: 29 TDLVRLYLQDIGRIPLLKRDEEVHIAQQVQSYLRLVEIQNRAAESDAAIDQYQTAIAVHD 88
Query: 295 -LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSRE 331
L Q G P+ WAK +G + LK L SG +++
Sbjct: 89 QLLVQLGHRPSYERWAKILGQTVATLKQTLKSGKKRWAELAGLTVEELENIEKQGITAKA 148
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 149 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQ 208
Query: 385 GVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
G+ I+ Q +++R H+ L + +R I + E G + EV G++
Sbjct: 209 GI-TRAIATQSRMIRLPVHITEKLNKIKRAQRKISQ-----EKGHTPKIDEVAEELGMTP 262
Query: 443 ERVRQL 448
E+VR++
Sbjct: 263 EQVREV 268
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 32/69 (46%), Positives = 49/69 (71%), Gaps = 4/69 (5%)
Query: 392 SVQKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
S + +LMR+ ++N +L L P+E+ ++ LRFG +DG SLSE+G I LS+ERVRQ
Sbjct: 300 SPEDELMREALQNDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQ 359
Query: 448 LESRALYRL 456
+E++AL +L
Sbjct: 360 IEAKALQKL 368
>gi|323453176|gb|EGB09048.1| hypothetical protein AURANDRAFT_53467 [Aureococcus anophagefferens]
Length = 468
Score = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 79/137 (57%), Gaps = 5/137 (3%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
DR++ L + LL++DEE L ++Q L E ++ L + GREPT +EW A
Sbjct: 131 DRDEGLHWQIRNMGQTALLSSDEEKALARRVQRLCTWEGIRANLTASLGREPTELEWGAA 190
Query: 312 IGLS---CRDLKSELHSGNSSREK--LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+S C + E + K +INANLRLVV ++K+YQ RG+ D++QEG+ GL
Sbjct: 191 ARISRAACENGSFEKARKKCLKAKAAMINANLRLVVSISKRYQHRGLHFQDVIQEGTFGL 250
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P+ G +F+
Sbjct: 251 TRAVEKFDPEKGFKFST 267
Score = 71.6 bits (174), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 31/72 (43%), Positives = 54/72 (75%), Gaps = 1/72 (1%)
Query: 388 IPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+PD + + ++ + LL T L+ +E +VRLRFG++DGK ++L E+G +F +++ERVR
Sbjct: 379 LPDERAETKSLQSDIHGLLRTALSDRECDVVRLRFGLDDGKARTLEEIGTVFSITRERVR 438
Query: 447 QLESRALYRLKQ 458
Q+E+RAL++L+Q
Sbjct: 439 QIEARALHKLRQ 450
>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 = 93.2 bits (230), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 47/128 (36%), Positives = 77/128 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT +EE ++Q ++ L + + +L + +PT EW+ GL
Sbjct: 85 DAVRTYLHEIGRVPLLTREEEIIYGKKVQQMMSLLEMRDELTKELDHDPTAAEWSAKAGL 144
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S ++ ++ G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 145 SESEMTEIMNRGRRAKQKMIEANLRLVVSIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 204
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 205 PMRGYKFS 212
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 60/222 (27%), Positives = 105/222 (47%), Gaps = 44/222 (19%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L G ++ DP+R + W + TR + L I + L ++++ + +L
Sbjct: 196 LERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELF 255
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q+GR T E AKA+ L ++ L + ++ +LR+ + L
Sbjct: 256 QQYGRNATPTEIAKALDLEPSQIRDYLLASRHP----VSLDLRVG-------DNQDTELQ 304
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 416
DLL++ S D V ++L+RQ +++L+ L P++R +
Sbjct: 305 DLLEDESAS-----------------------ADSYVTQELLRQDLKDLMADLTPQQREV 341
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 342 LTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 383
>gi|323454681|gb|EGB10551.1| hypothetical protein AURANDRAFT_23034 [Aureococcus anophagefferens]
Length = 388
Score = 92.8 bits (229), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 48/119 (40%), Positives = 73/119 (61%), Gaps = 3/119 (2%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI---EWAKAIGLSCRDLKSELH 324
+LL ADEE L ++Q L E ++ L + GR + WA+A+ +S DL++
Sbjct: 69 RLLNADEEVALAREVQRLRSYEDVRATLGEELGRAAEDVGEAAWARALAVSADDLRAARS 128
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +R L +ANLRLVV +AK+Y+ G++ DLLQEG+ GL ++VE+F P+ G RF+
Sbjct: 129 RGVDARSTLTSANLRLVVSIAKRYRFCGLAQEDLLQEGAFGLSRAVERFDPERGFRFST 187
Score = 56.2 bits (134), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/73 (38%), Positives = 48/73 (65%), Gaps = 1/73 (1%)
Query: 388 IPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+PD V + R++V +LL T+ N +ER ++ +RFG+ P S +++ +S+ERVR
Sbjct: 303 VPDEFVAEAASREYVGDLLATVCNDRERDVLGMRFGLYGNAPISKTKIAERLAVSRERVR 362
Query: 447 QLESRALYRLKQS 459
Q+E RAL +L+Q+
Sbjct: 363 QIEVRALTKLRQT 375
>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 = 92.8 bits (229), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 48/128 (37%), Positives = 75/128 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K L + REP + EWA +
Sbjct: 18 DMVRTYLREIGRVPLLTREQEIVYGKQVQQMMTLIDAKEVLAKKLHREPDMSEWADVVQQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +++ + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETEVQQTVAQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PMRGYKFS 145
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 49/78 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTNQEFLRQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVQEY 324
>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 = 92.8 bits (229), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 67/211 (31%), Positives = 117/211 (55%), Gaps = 15/211 (7%)
Query: 252 DRN--DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
D+N DP+R +L LLT +EE ++Q L+ LE K L+ + G+EPT EWA
Sbjct: 4 DKNFTDPVRAYLREIGRVPLLTHEEEIHYAKRVQRLVVLENLKESLKQKLGKEPTDSEWA 63
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
A L+ +L++ + +G++++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ +
Sbjct: 64 AAAELTEAELRNCIAAGDAAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTLGMQRG 123
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRF 421
VEKF P G RF+ ++ + + + H+ L + +R + +
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQ--- 180
Query: 422 GIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
E+G+ +++E+ L+ ++VR+ RA
Sbjct: 181 --ENGRAATIAELAQELELTPKQVREYLERA 209
Score = 58.9 bits (141), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 53/89 (59%), Gaps = 1/89 (1%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +TG+ D ++ L + + L+ L P++R ++ LRFG+ DGKP +L+++G
Sbjct: 228 GELLEDTGLLPEDYAIHSSL-QLDLEKLMADLTPQQREVLALRFGLTDGKPLTLAKIGIR 286
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASY 466
+S+ERVRQ+E AL +L+Q G Y
Sbjct: 287 LNISRERVRQIEREALSKLRQRKGSIREY 315
>gi|1769588|gb|AAB95226.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 328
Score = 92.8 bits (229), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 52/143 (36%), Positives = 84/143 (58%)
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
K ++++ + G D +R +L LLT +EE Q+Q L+ L++++ L+
Sbjct: 3 KVNLQQAPNNGKSSADMVRTYLREIGRVPLLTHEEEIVYGKQVQRLMALQEKRQTLEESL 62
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
RE T EWA+A L+ + L+ +L G ++ K+I ANLRLVV +A+ + R + DL+
Sbjct: 63 DRERTREEWAEAAQLTPKQLQRDLQIGERAKRKMIEANLRLVVAIARNIKKRNLEFLDLI 122
Query: 360 QEGSMGLMKSVEKFKPQAGCRFA 382
QEGS+GL + VEKF P G +F+
Sbjct: 123 QEGSLGLERGVEKFDPTKGYKFS 145
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 52/72 (72%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD +V +L++Q +R+L+ L P+++ ++ LRFG+ DGK SL+++G LS+ERVR
Sbjct: 245 ESPDNNVTYELLKQDLRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVR 304
Query: 447 QLESRALYRLKQ 458
QLE +AL L++
Sbjct: 305 QLERQALNHLRR 316
>gi|33866957|ref|NP_898516.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
WH 8102]
gi|33639558|emb|CAE08942.1| Possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 8102]
Length = 467
Score = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 77/248 (31%), Positives = 115/248 (46%), Gaps = 55/248 (22%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELI--------------------AQIQDLIRLEKEKS 293
D LRL+L LLT +EE L A I +L RLE+ +
Sbjct: 110 TDLLRLYLQDIGRVDLLTNEEEVTLARLVQRREALLQQQRDLATSDAAIGELYRLEELQR 169
Query: 294 KLQSQFGREPTLIEWAKAIGLS----------------------CRDLKSELHSGNSSRE 331
+ +Q PT EWA+A LS R+LK+ L +G +++
Sbjct: 170 REANQHSHWPTKQEWARAAHLSLAELQQRIEAGYGAWAREANLEARELKTALRNGRRAKD 229
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV----- 386
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 230 HMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 289
Query: 387 -EIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
I+ Q + +R HV L + ++ I +G+ S++++ LS++
Sbjct: 290 GMTRAIATQSRTIRLPVHVTEKLNRIKRAQQEI-----ATNEGRIASIADLARALKLSED 344
Query: 444 RVRQLESR 451
VRQ +R
Sbjct: 345 TVRQTLAR 352
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 48/74 (64%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + +LL L +E ++R RFG+ED P++L+++G LS+ER
Sbjct: 378 GKATPEQTLTHDELHNDLEHLLDELTSREAAVLRRRFGLEDDTPQTLAQIGEALKLSRER 437
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 438 VRQIETRALLKLRQ 451
>gi|224000633|ref|XP_002289989.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana
CCMP1335]
gi|220975197|gb|EED93526.1| plastid RNA polymerase sigma factor [Thalassiosira pseudonana
CCMP1335]
Length = 321
Score = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 75/116 (64%), Gaps = 2/116 (1%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTA EE+ L +++ +++ E L + GR P++ EWA A S R + + +
Sbjct: 3 ELLTAKEEYSLGMKVKFMVKCEAVHEGLSVEMGRSPSIAEWAAAC--SPRLFREMMLTAK 60
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++++++ N+RLVV +A++Y G G+++ DL+QEGS+GL ++ EKF P+ G +F+
Sbjct: 61 EAKQRMVQCNMRLVVSIARRYHGVGVNVQDLVQEGSLGLARAAEKFDPKKGFKFST 116
Score = 40.4 bits (93), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 39/70 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ +V L+ + +L L ER ++ LR+GI DG ++++ V + +K VR
Sbjct: 230 PEQNVDHGLLHNDIEYMLGKLGEDERSVLCLRYGINDGITRTVTLVASEMRQTKSWVRSQ 289
Query: 449 ESRALYRLKQ 458
E RAL +L++
Sbjct: 290 ECRALRKLRR 299
>gi|148243538|ref|YP_001228695.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147851848|emb|CAK29342.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 370
Score = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 81/263 (30%), Positives = 130/263 (49%), Gaps = 64/263 (24%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ------------- 283
+R+AS K++ + D +RL+L LL+ +EE L +Q
Sbjct: 2 TNRQASSKRRST-----ADLVRLYLQDIGRVDLLSHEEELTLARLVQKREQLVVERRGLC 56
Query: 284 ----DLIRLEK-EKSKLQ--SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS------- 329
D+ RLE E+ +L+ S+ G +P+ +WA+A GLS +L++++ +GN +
Sbjct: 57 SKHPDVARLEALEEQRLRETSKLGHQPSQSQWAQACGLSAGELRAQVQAGNKAWAELLDM 116
Query: 330 ---------------REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL + VEK+
Sbjct: 117 SPGDLQRQLLHGRRAKERMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERGVEKYD 176
Query: 375 PQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIV-RLRFGIE 424
P G RF+ G+ I+ Q + +R H+ L + +R I RL
Sbjct: 177 PTRGFRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNRIKKAQRDIASRL----- 230
Query: 425 DGKPKSLSEVGNIFGLSKERVRQ 447
G+ +L ++ LS+E VRQ
Sbjct: 231 -GRTATLKDLSQELQLSEEVVRQ 252
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 62/224 (27%), Positives = 102/224 (45%), Gaps = 50/224 (22%)
Query: 247 LSEGFDRNDPLRLF-------LWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L G ++ DP R F W + TR + T L I + L R++K + +
Sbjct: 168 LERGVEKYDPTRGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKAQRDIA 227
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELH-SGNSSREKLINA--NLRLVVHVAKQYQGRGI 353
S+ GR TL +DL EL S R+ L+ ++ L V +
Sbjct: 228 SRLGRTATL-----------KDLSQELQLSEEVVRQTLMRVPRSVSLDTRVGRDMD---T 273
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 413
L DLL++G + P+ + ++ + + LL L+ +E
Sbjct: 274 ELGDLLEDG-----------------------MPTPEQRLTREKLHDDLLVLLNELSGRE 310
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++RLRFG++D P++L+E+G LS+ERVRQ+ESRAL++L+
Sbjct: 311 ARVIRLRFGLDDDTPQTLAEIGKTLDLSRERVRQIESRALHKLR 354
>gi|257063114|ref|YP_003142786.1| sigma-70 family RNA polymerase sigma factor [Slackia
heliotrinireducens DSM 20476]
gi|256790767|gb|ACV21437.1| RNA polymerase sigma factor, sigma-70 family [Slackia
heliotrinireducens DSM 20476]
Length = 269
Score = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 64/232 (27%), Positives = 118/232 (50%), Gaps = 33/232 (14%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D R +L + LL + EE +L+A+I R E + Q ++ +++ A+A
Sbjct: 43 DDDTRTYLLEIDRFPLLDSQEEADLVAKI----RAGAEAADQLRQASQDGVVLDDAEA-- 96
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G++++E+L+ A+LRLV +AK+Y RG+S DL+ EG+MGL+++ E+F
Sbjct: 97 ---RRLARIQSDGDAAKEQLVGASLRLVARIAKRYIFRGVSFMDLVHEGNMGLIRAAERF 153
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMR----------------QHVRNLLTLLNPKERCIV 417
P +G F+ ++ + R + L+ ++ +ER +
Sbjct: 154 DPASGAAFSVYASWWIRAAISRATGRGRWGCFPLDPSETFGEGEIETALSSMSERERDYI 213
Query: 418 RLRFGIEDGKPKSLSEV----GNIF----GLSKERVRQLESRALYRLKQSLG 461
R RFG+E+G ++ E G + G+++ER RQ+E++ L +L+ G
Sbjct: 214 RFRFGLENGSSRTFGESAPEPGVVCTLPSGITRERARQIEAKFLAKLRNLRG 265
>gi|86608620|ref|YP_477382.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)]
gi|86557162|gb|ABD02119.1| RNA polymerase sigma factor [Synechococcus sp. JA-2-3B'a(2-13)]
Length = 319
Score = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 48/137 (35%), Positives = 82/137 (59%), Gaps = 7/137 (5%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+SE D D + FL LLTA+EE L Q+Q ++ L +++ +S G
Sbjct: 1 MSESLDLQDAVGRFLKTIGRYSLLTAEEELRLAHQVQRMVTLLEQRQPHESVEG------ 54
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
W++ +G+ +L+ L G +++++++ NLRLVV +AK+Y+ RG+ DL+QEG++GL
Sbjct: 55 -WSQRLGIPLAELQQILRQGEAAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGL 113
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P G +F+
Sbjct: 114 TRAVEKFDPTRGYKFST 130
Score = 45.8 bits (107), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 35/51 (68%)
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
R+ VR L+ L+ +ER ++ R+G++ + +L E+G GLS+ERVRQ+E
Sbjct: 241 REEVRALVGQLSERERQVIVARYGLDGSRGLTLREIGEHIGLSRERVRQIE 291
>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 = 92.4 bits (228), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 85/135 (62%), Gaps = 5/135 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG--REPTLIE---W 308
+D +R++L +LL ADEE EL +I DL+ LE+ + + + G +P + W
Sbjct: 88 DDSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPETLW 147
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A+ + +S + + LH G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 148 AEEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 207
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 208 AAEKFDHEKGYKFST 222
Score = 74.7 bits (182), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L P+ER +++LR+G++DG+ K+L E+G IF +
Sbjct: 315 FIESEGETPEERVAKVLLREDLESVLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNV 374
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 375 TRERIRQIEAKALRKLR 391
>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 = 92.4 bits (228), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 79/135 (58%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ + + G P EW
Sbjct: 153 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLLLEELAGQFEQDNGHYPDNKEW 212
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 213 AVLVDMPPVKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 272
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 273 AAEKFDHEKGYKFST 287
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 32/78 (41%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F +E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 380 FIEADIENPEQDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDV 439
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 440 TRERIRQIEAKALRKLRH 457
>gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299]
gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299]
Length = 595
Score = 92.4 bits (228), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 64/224 (28%), Positives = 120/224 (53%), Gaps = 14/224 (6%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
R + +K ++ + D ++ +L T LLT EE EL +IQDL+ L +L+ +
Sbjct: 254 RNRRIARKNADTKKQTDSMKTYLKDIGTVSLLTGAEEVELAKRIQDLMYLNSVCERLEEE 313
Query: 299 -FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
G+EPT WA ++ ++L+ L G ++ +I ANLRLVV +AK+Y + +S D
Sbjct: 314 NGGKEPTRFMWAIECNITEQELERRLEEGKRAKNAMIQANLRLVVSIAKRYANKSMSFQD 373
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFANTG------VEIPDISVQKQLMR--QHVRNLLTLL 409
L+QEG +GL++ EKF + G +F+ IS Q + +R H+ +++ +
Sbjct: 374 LIQEGCVGLIRGAEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRM 433
Query: 410 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+ ER +V ++ G+ + E+ + ++ E+++Q++ +L
Sbjct: 434 SKVERQMV-----LKLGRDPTHEELADAMEMTVEKIKQIKKASL 472
Score = 81.6 bits (200), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 32/73 (43%), Positives = 57/73 (78%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
E P+ K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+GN+F +++ER+
Sbjct: 501 TEHPEGETGKVLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERI 560
Query: 446 RQLESRALYRLKQ 458
RQ+E++AL +L+Q
Sbjct: 561 RQIEAKALRKLRQ 573
>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 = 92.0 bits (227), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 85/135 (62%), Gaps = 5/135 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG--REPTLIE---W 308
+D +R++L +LL ADEE EL +I DL+ LE+ + + + G +P + W
Sbjct: 87 DDSIRVYLQEIGRIRLLRADEEIELARKIADLLELERAREAVFQRMGLWSDPEEVPDTLW 146
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A+ + +S + + LH G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 147 AEEVKMSLPEFRRRLHRGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 206
Query: 369 SVEKFKPQAGCRFAN 383
+ EKF + G +F+
Sbjct: 207 AAEKFDHEKGYKFST 221
Score = 72.0 bits (175), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 56/78 (71%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F + E P+ V K L+R+ + ++L L +ER +++LR+G++DG+ K+L E+G IF +
Sbjct: 314 FIESDGETPEDRVAKVLLREDLESVLETLTARERDVLKLRYGLDDGRMKTLEEIGQIFNV 373
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 374 TRERIRQIEAKALRKLRH 391
>gi|260436706|ref|ZP_05790676.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 8109]
gi|260414580|gb|EEX07876.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. WH 8109]
Length = 377
Score = 92.0 bits (227), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 77/248 (31%), Positives = 119/248 (47%), Gaps = 53/248 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELI--------------------AQIQDLIRLEKEKS 293
D LRL+L LLT +EE L A I +L RLE+ +
Sbjct: 20 TDLLRLYLQDIGRVDLLTNEEEVTLARLVQRREALLLQQRELAESDAAIGELHRLEELQR 79
Query: 294 KLQSQFGREPTLIEWAKAIGL----------------------SCRDLKSELHSGNSSRE 331
+ +Q PT EWA+A GL +D+K L +G +++
Sbjct: 80 REANQHSHWPTKQEWARAAGLPLPDLQQRIELGYQAWAEQAQLEAKDVKLALRNGRRAKD 139
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
+I ANLRLVV VAK+YQ RG+ + DL+QEG++GL ++VEKF P G RF+
Sbjct: 140 HMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 199
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ +G+ S++++ G+S++
Sbjct: 200 GI-TRAIATQSRTIRLPV-HVTEKLNRIKR--VQQEIASNEGRIASIADLARELGISEDT 255
Query: 445 VRQLESRA 452
VRQ +R
Sbjct: 256 VRQTLARV 263
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 48/74 (64%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + +LL L +E ++R RFG+ED P++L+++G LS+ER
Sbjct: 288 GHATPEQTLTHDELHNDLEDLLDELTSREAAVLRRRFGLEDDTPQTLAQIGEELKLSRER 347
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 348 VRQIETRALLKLRQ 361
>gi|170076898|ref|YP_001733536.1| group 2 sigma factor [Synechococcus sp. PCC 7002]
gi|169884567|gb|ACA98280.1| Group 2 sigma factor [Synechococcus sp. PCC 7002]
Length = 398
Score = 92.0 bits (227), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 56/150 (37%), Positives = 87/150 (58%), Gaps = 15/150 (10%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ +GLS ++L S L +G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 138 WAEQVGLSVKELDSILKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 197
Query: 368 KSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVR 418
++V+KF P G RF+ G+ I+ Q + +R HV L + +R I +
Sbjct: 198 RAVDKFDPTKGYRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQ 256
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ G SL +V ++ E+VR++
Sbjct: 257 TQ-----GCTPSLDDVAQALEMTPEQVREV 281
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 37/91 (40%), Positives = 59/91 (64%), Gaps = 4/91 (4%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D S ++ L+R+ ++ NLLT L +ER +++LR+G+ DGK SL+E+G + LS
Sbjct: 307 LETQDASPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRMLELS 366
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLL 472
+ERVRQ+E++AL +L+Q Y D L
Sbjct: 367 RERVRQIEAKALQKLRQPKRRNIMRDYLDTL 397
>gi|317968274|ref|ZP_07969664.1| putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. CB0205]
Length = 382
Score = 91.7 bits (226), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 66/197 (33%), Positives = 98/197 (49%), Gaps = 37/197 (18%)
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLI----------------------EWAKAIGLSCRD 318
++Q L LE + +L S G P+L WA LS +
Sbjct: 66 EVQVLEELEHSRQQLASHLGHWPSLQLWSEHQQRSGAELKESLKAGHEAWATLSELSIAE 125
Query: 319 LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
LK LH G +R+++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEK+ P G
Sbjct: 126 LKQALHQGRRARDRMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRG 185
Query: 379 CRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
RF+ G+ I+ Q + +R HV L + +R I E G+
Sbjct: 186 FRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHVTEKLNRIKKAQRQIAS-----EHGRLA 239
Query: 430 SLSEVGNIFGLSKERVR 446
S++++ GLS+E +R
Sbjct: 240 SVADLAKELGLSEEVIR 256
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 103/226 (45%), Gaps = 52/226 (23%)
Query: 247 LSEGFDRNDPLRLF-------LWGPE--TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQ 296
L ++ DP R F W + TR + T L + + L R++K + ++
Sbjct: 173 LERAVEKYDPTRGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRQIA 232
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL----RLVVHVAKQYQGRG 352
S+ GR ++ + AK +GLS E++I L R V + + +
Sbjct: 233 SEHGRLASVADLAKELGLS---------------EEVIRLTLMRVPRSVSLDTRVGRDQD 277
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPK 412
L DLL++G P+ ++ K + + LL L+ +
Sbjct: 278 TELGDLLEDGHA-----------------------TPEQALTKTQLHDDLEALLEELSGR 314
Query: 413 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
E ++RLRFG+E+ P++LS++G LS+ERVRQ+E+RAL +L+Q
Sbjct: 315 EAEVIRLRFGLENDTPQTLSQIGEDLHLSRERVRQIETRALLKLRQ 360
>gi|254423226|ref|ZP_05036944.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
gi|196190715|gb|EDX85679.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
Length = 431
Score = 91.7 bits (226), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 48/120 (40%), Positives = 67/120 (55%), Gaps = 22/120 (18%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL---------------------- 323
+ L +++L +Q G P+L WAKA G+ DLK L
Sbjct: 127 VHLLNTRARLTAQLGHRPSLERWAKASGVDMPDLKPTLAQGKRLWAEIAGMSVEEIVEIQ 186
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 187 NEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFST 246
Score = 72.0 bits (175), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 50/151 (33%), Positives = 78/151 (51%), Gaps = 29/151 (19%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQEGSMGLMKSVEKF--KPQAGCRF 381
+RL VH+ + Q QGR D+ +E M + + E P++
Sbjct: 266 TIRLPVHITEKLNKIKKAQRKISQTQGRTAKAEDIAKELDMTVAQIREVLLKVPRSVSLD 325
Query: 382 ANTG----------VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGK 427
G +E DIS + +LMR+ ++ LLT L +E+ ++ LRFG++DG
Sbjct: 326 TKVGKDRDTELGDLLETEDISPEDRLMRESLKRELHQLLTDLTTREQEVITLRFGLDDGV 385
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 386 PYSLAEIGRTLELSRERVRQIESKALQKLRQ 416
>gi|124024644|ref|YP_001018951.1| type II alternative RNA polymerase sigma factor [Prochlorococcus
marinus str. MIT 9303]
gi|123964930|gb|ABM79686.1| Putative type II alternative RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9303]
Length = 376
Score = 91.3 bits (225), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 76/242 (31%), Positives = 116/242 (47%), Gaps = 53/242 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ--------------------DLIRLEKEKS 293
DP+RL+L +LLT +EE L +Q +L RLE+ +
Sbjct: 19 TDPVRLYLQDIGRVELLTHEEEVTLARLVQRREALLKQERQLASSQEAIKELQRLEELQQ 78
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDL----------------------KSELHSGNSSRE 331
+ + PT EWA A GL+ +L K L +G +++
Sbjct: 79 REANHSCHWPTKQEWAMAAGLTLAELQDKIETGYKTWGALTGLDPLELKRSLRAGRRAKD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RGI L DL+QEG++GL ++VEKF P G RF+
Sbjct: 139 QMIQANLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPARGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R + ++ LN +R V+ G+ S++++ GLS+E
Sbjct: 199 GI-TRAIATQSRTIRLPM-HITEKLNRIKR--VQQEIASNQGRLASIADLAKALGLSEET 254
Query: 445 VR 446
VR
Sbjct: 255 VR 256
Score = 58.2 bits (139), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 47/69 (68%), Gaps = 4/69 (5%)
Query: 394 QKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+++L R + N LL L+ +E ++R RFG+ED P++L+++G LS+ERVRQ+E
Sbjct: 292 EEKLTRDQLHNDLEILLDELSNREATVIRRRFGLEDDTPQTLTQIGEAMHLSRERVRQIE 351
Query: 450 SRALYRLKQ 458
S AL +L+Q
Sbjct: 352 SHALLKLRQ 360
>gi|33864481|ref|NP_896041.1| type II alternative RNA polymerase sigma factor [Prochlorococcus
marinus str. MIT 9313]
gi|33641261|emb|CAE22391.1| Putative type II alternative RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
Length = 376
Score = 91.3 bits (225), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 76/242 (31%), Positives = 116/242 (47%), Gaps = 53/242 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ--------------------DLIRLEKEKS 293
DP+RL+L +LLT +EE L +Q +L RLE+ +
Sbjct: 19 TDPVRLYLQDIGRVELLTNEEEVTLARLVQRREALLKQERKLASNQEAIKELQRLEELQQ 78
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDL----------------------KSELHSGNSSRE 331
+ + PT EWA A GL+ +L K L +G +++
Sbjct: 79 REANHSCHWPTKQEWAMAAGLTLAELQEKIETGYKTWGALTGLDPLELKRSLRAGRRAKD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RGI L DL+QEG++GL ++VEKF P G RF+
Sbjct: 139 QMIQANLRLVVAVAKKYQQRGIELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R + ++ LN +R V+ G+ S++++ GLS+E
Sbjct: 199 GI-TRAIATQSRTIRLPM-HITEKLNRIKR--VQQEIASSQGRLASIADLAKALGLSEET 254
Query: 445 VR 446
VR
Sbjct: 255 VR 256
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 47/69 (68%), Gaps = 4/69 (5%)
Query: 394 QKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+++L R + N LL L+ +E ++R RFG+ED P++L+++G LS+ERVRQ+E
Sbjct: 292 EEKLTRNQLHNDLEILLDELSNREATVIRRRFGLEDDTPQTLTQIGEAMHLSRERVRQIE 351
Query: 450 SRALYRLKQ 458
+ AL +L+Q
Sbjct: 352 THALLKLRQ 360
>gi|299472559|emb|CBN79861.1| chloroplast RNA-polymerase sigma factor precursor [Ectocarpus
siliculosus]
Length = 694
Score = 91.3 bits (225), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 74/130 (56%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D L +L LL EE L QIQ + E + LQ G EP+ EWA A+G
Sbjct: 48 GDALAFYLRTVAKVDLLKPHEEIVLGRQIQKGVSYENTRDHLQLMRGYEPSEEEWAVALG 107
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +L EL + ++ ++ ANLRLVV VAK+Y+ + +S DL+QEG+ GL+K+ EKF
Sbjct: 108 MDREELVKELSRASKAKMAMLAANLRLVVSVAKRYRFQKLSFQDLIQEGTFGLVKAAEKF 167
Query: 374 KPQAGCRFAN 383
P+ G +F+
Sbjct: 168 DPERGFKFST 177
Score = 68.2 bits (165), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD Q +M+Q V LL L+ +E+ +V+ RFG+ P++L EVG F L++ERVRQ+
Sbjct: 286 PDKQAQSDVMKQKVTELLMTLSIREQEVVKARFGLGGALPRTLEEVGRDFRLTRERVRQI 345
Query: 449 ESRALYRLKQ 458
E+RAL++L+Q
Sbjct: 346 EARALHKLRQ 355
>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 = 91.3 bits (225), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 50/158 (31%), Positives = 83/158 (52%), Gaps = 29/158 (18%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-------------- 300
D +R++L +LL ADEE EL QI DL+ LE+ ++++ +
Sbjct: 61 DSIRVYLQEIGRIRLLRADEEIELARQIADLLTLERLRARMGAAGTDMHSDVADLLGDDD 120
Query: 301 ---------------REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
E L WA+A G++ + + G +++K++ +NLRLVV +A
Sbjct: 121 LLTENLLASGDQVTESEQELRRWAEAAGIAYEQFRDRIAYGRRAKDKMVQSNLRLVVSIA 180
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
K+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 181 KKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 218
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 56/77 (72%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G +F +
Sbjct: 311 FIEADGETPEDKVAKNLLREDLEAVLNTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNV 370
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 371 TRERIRQIEAKALRKLR 387
>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 = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 46/130 (35%), Positives = 78/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R++L LLT+D+E +Q +I L++++ +L + REPT +E A +
Sbjct: 6 SDLVRIYLQEIGQFPLLTSDQEITYARLVQQMIALQEQQHELTQKLEREPTTLELANFLN 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + L G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + +EKF
Sbjct: 66 KTEAQVNQILELGQRAKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKF 125
Query: 374 KPQAGCRFAN 383
P G + +
Sbjct: 126 DPNRGYKLST 135
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/77 (37%), Positives = 52/77 (67%), Gaps = 1/77 (1%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A+ GV PD ++ +++RQ + +LL L P +R ++ LRFG+ D + +SL+++G L
Sbjct: 229 LASEGVS-PDENITHEMLRQDLSDLLASLKPMQREVLILRFGLLDNQEQSLAQIGEKLNL 287
Query: 441 SKERVRQLESRALYRLK 457
S+ERVRQ++ +A+ L+
Sbjct: 288 SRERVRQIQQKAMTALR 304
>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 = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/128 (37%), Positives = 76/128 (59%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E Q+Q ++ L + K L+ + EP+L EWA +
Sbjct: 18 DMVRTYLREIGRVPLLSREQEIIYGKQVQQMMALLEAKEALRKEIDHEPSLSEWAARVNQ 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L + G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SETELNHLMVQGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFA 382
P G +F+
Sbjct: 138 PMRGYKFS 145
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 48/78 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ +R + NLL L P++R +V LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PEYYTTQEFLRHDLNNLLAELTPQQRQVVALRFGLEDGNELSLAKVGERLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL L++ Y
Sbjct: 307 EHQALAHLRRRRANVKEY 324
>gi|443321959|ref|ZP_21050996.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442788351|gb|ELR98047.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 353
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 47/115 (40%), Positives = 73/115 (63%), Gaps = 1/115 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL +EE L QI+ LI++E++ +L+ + R PT E A+ L S L + L+ G
Sbjct: 55 LLNPEEELTLAYQIKFLIKVEEQTQQLERELRRSPTKAELVTALALNSVGQLDNLLYQGR 114
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 115 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAVGLNRATEKFDPNKGYKFS 169
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 54/77 (70%), Gaps = 1/77 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+T +++P+ + + +MRQ + +L +L +ER ++ LR+G+ + +L EVG +F LS
Sbjct: 266 DTEIQLPEDKISETMMRQEISEVLAEVLTERERDVISLRYGLTTDQAYTLDEVGGMFNLS 325
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ++++A+ +L++
Sbjct: 326 RERVRQIQTKAMRKLRR 342
>gi|219130701|ref|XP_002185497.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217403028|gb|EEC42984.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 329
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 49/131 (37%), Positives = 77/131 (58%), Gaps = 2/131 (1%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-- 312
D +R ++ +LL +EE L ++Q LI+ E + +L+++ R PT EWA I
Sbjct: 1 DSIRSYIKTMCNHELLNKNEEIILGREVQVLIQYEATREQLEAELLRPPTYQEWATKIQP 60
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
+ DLK ++ ++ L +N+RLVV +AK+YQ RG+S DL QEG +GL ++ EK
Sbjct: 61 DMMVPDLKKQIRRSLRAKAALTESNIRLVVSIAKRYQHRGLSFQDLAQEGILGLTRACEK 120
Query: 373 FKPQAGCRFAN 383
F P+ G RF+
Sbjct: 121 FDPERGFRFST 131
Score = 73.9 bits (180), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/74 (40%), Positives = 52/74 (70%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
Q+++ + L+ LN +E+ ++R+RFG++DGK K+L E+G F +++ER+RQ+ESRAL++
Sbjct: 252 QMLKDDISRLICTLNSREQAVIRMRFGLDDGKAKTLEEIGRRFSVTRERIRQIESRALHK 311
Query: 456 LKQSLGGKASYGYA 469
L+Q A Y
Sbjct: 312 LRQPYRNHAVKCYV 325
>gi|119493081|ref|ZP_01624006.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106]
gi|119452826|gb|EAW34001.1| Sigma 28 (Flagella/Sporulation) [Lyngbya sp. PCC 8106]
Length = 331
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 74/115 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL A+EE EL QI+ L+ ++ + +L + GR P E A A GLS +L + G
Sbjct: 33 LLKANEEIELARQIKALVTFKELEEELTHELGRCPQSSELATATGLSEAELNHQFQQGII 92
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++K+I++NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 93 AKQKMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPDKGYKFST 147
Score = 54.7 bits (130), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 50/71 (70%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L ++LN +E+ I+ LR+G+ G P +L EV + LS+ERVRQ
Sbjct: 249 PESQINELMMRQELLEVLRSVLNEREQDILSLRYGLTTGVPYTLDEVSGMCSLSRERVRQ 308
Query: 448 LESRALYRLKQ 458
++++A+ +L++
Sbjct: 309 IQAKAMRKLRR 319
>gi|452821128|gb|EME28162.1| RNA polymerase primary sigma factor [Galdieria sulphuraria]
Length = 670
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 53/147 (36%), Positives = 82/147 (55%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N+ +A+ KK R D L +L L+ EE + +I L RLE + L+
Sbjct: 323 NNNEANGKKGKGINSRRVDSLNTYLSEIGQVNRLSLVEEKVICEEIARLTRLEAVREDLR 382
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR P EWA LS +L+ +L G ++ +++ ANLRLV+ AK+Y+ RG++
Sbjct: 383 RKMGRLPRENEWAWEANLSVSELRGKLIKGRRAKNRMVAANLRLVICFAKRYRNRGVAFQ 442
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEGS+GL++ VEK+ G RF+
Sbjct: 443 DLVQEGSIGLIRGVEKYDAHRGFRFST 469
Score = 72.4 bits (176), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 56/192 (29%), Positives = 97/192 (50%), Gaps = 33/192 (17%)
Query: 267 RKLLTADEEFELIAQIQDLIR-LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+ LL F L + ++I+ + K +L + GREPT +E A +G+ + L
Sbjct: 481 KALLECSRMFRLPVHVNEMIKDIRKCSLELMTSLGREPTKLEIAMKVGMPEEKVIFLLQR 540
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
S+ L L + + + R +L D++ +TG
Sbjct: 541 TQSA--------LSLEMPIGHDMECR-TTLADVVH----------------------STG 569
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
E P+ + +R + LT+LN +ER I+R+RFG++DG+ KSL EVG++F +++ERV
Sbjct: 570 -ETPEENAVCSSLRYDLERALTVLNLREREIIRMRFGLDDGRTKSLGEVGHLFCVTRERV 628
Query: 446 RQLESRALYRLK 457
RQ+E++AL +L+
Sbjct: 629 RQIETQALRKLR 640
>gi|414079485|ref|YP_007000909.1| RpoD family RNA polymerase sigma factor SigE [Anabaena sp. 90]
gi|413972764|gb|AFW96852.1| RpoD family RNA polymerase sigma factor SigE [Anabaena sp. 90]
Length = 389
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 76/114 (66%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L +++ ++ L+ Q G +P+ ++ A + ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVKELQAALELQLGAQPSKVQVASQLEITEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKGYKFS 204
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 307 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQ 366
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 367 IQSKAMRKLRRPHIAKRLKGW 387
>gi|440680152|ref|YP_007154947.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
gi|428677271|gb|AFZ56037.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Anabaena
cylindrica PCC 7122]
Length = 377
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 75/114 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L ++ ++ L+ + G++P+ E A ++ + L+S L+ G
Sbjct: 79 LLKADEEVELARRVRFLEEVKDLQAALELELGQQPSKNEVASKFEMTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 192
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 295 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 354
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 355 IQSKAMRKLRRPHIAKRLKGW 375
>gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 398
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 40/76 (52%), Positives = 57/76 (75%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ +GLS ++L S L +G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 138 WAEQVGLSVKELDSILKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 197
Query: 368 KSVEKFKPQAGCRFAN 383
++V+KF P G RF+
Sbjct: 198 RAVDKFDPTKGYRFST 213
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 36/91 (39%), Positives = 59/91 (64%), Gaps = 4/91 (4%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D S ++ L+R+ ++ NLLT L +ER +++LR+G+ DGK SL+E+G + +S
Sbjct: 307 LETQDASPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRMLDVS 366
Query: 442 KERVRQLESRALYRLKQSLGGKASYGYADLL 472
+ERVRQ+E++AL +L+Q Y D L
Sbjct: 367 RERVRQIEAKALQKLRQPKRRNIMRDYLDTL 397
>gi|428301525|ref|YP_007139831.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
6303]
gi|428238069|gb|AFZ03859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
6303]
Length = 387
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 46/114 (40%), Positives = 73/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + ++ L+ + G +P+ E A L+ R L++ L+ G
Sbjct: 89 LLKADEEVELARRVRFLEEWREAQAALKEKSGNQPSKAEVAAEFSLTERQLENRLYQGRV 148
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 149 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKGYKFS 202
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 305 PEAKMNESMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 364
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 365 IQSKAMRKLRRPHIAKRLKGW 385
>gi|428777601|ref|YP_007169388.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothece sp. PCC
7418]
gi|428691880|gb|AFZ45174.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothece sp. PCC
7418]
Length = 375
Score = 90.9 bits (224), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 43/115 (37%), Positives = 72/115 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL Q++ E ++ +L + G PT + A+A+ + ++L +L+ G
Sbjct: 78 LLQPDEEVELAQQVKLAADFEHKRQELAEKLGSPPTKQQLAEALEMGVKELDRKLYQGRV 137
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 138 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFST 192
Score = 57.4 bits (137), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 53/74 (71%), Gaps = 1/74 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
+ +P+ + + +M Q + ++L+ +L +E+ ++ +R+G+ +P +L EVG +F LS+ER
Sbjct: 291 MRLPEDQMNEAMMNQEISDVLSDVLTEREKDVISMRYGLNASQPYTLEEVGLMFNLSRER 350
Query: 445 VRQLESRALYRLKQ 458
VRQ++S+A+ +L++
Sbjct: 351 VRQIQSKAMRKLRR 364
>gi|299473209|emb|CBN78785.1| RNA polymerase [Ectocarpus siliculosus]
Length = 627
Score = 90.5 bits (223), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 80/124 (64%), Gaps = 8/124 (6%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL--SCRDLKSELHS 325
+LLT EE EL ++Q+L+R E+ + L+ Q GR T+ EWA + L+ E+
Sbjct: 172 ELLTRTEEIELGRKVQELLRWERVRMFLELQLGRAATMEEWAAELATMDGVEGLEREIGI 231
Query: 326 GNSSREKLINANLRLVVHVAKQ--YQGRG----ISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++R+++I+ NLRLVVH+A++ Y+G +SL D++Q+G+ GL+K+VE+F P+ G
Sbjct: 232 MKAARDRMISCNLRLVVHIARRKFYKGASGTLKVSLEDMIQDGTAGLVKAVERFDPEKGF 291
Query: 380 RFAN 383
RF+
Sbjct: 292 RFST 295
Score = 44.7 bits (104), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 51/91 (56%), Gaps = 14/91 (15%)
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDG 426
+KSV++ +P V+ D+S L++ V +L L+ +E ++R+RFGI
Sbjct: 400 VKSVQETEP----------VDGADVS----LLKTDVDTILGDLSEREAYVLRMRFGIGGS 445
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
P +L VG +++ERVRQ++ A+ +L+
Sbjct: 446 SPSTLETVGQELQVTRERVRQIQIAAIQKLR 476
>gi|16330349|ref|NP_441077.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|383322090|ref|YP_005382943.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|383325259|ref|YP_005386112.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|383491143|ref|YP_005408819.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|384436410|ref|YP_005651134.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|451814507|ref|YP_007450959.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|1652838|dbj|BAA17757.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|339273442|dbj|BAK49929.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
gi|359271409|dbj|BAL28928.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
GT-I]
gi|359274579|dbj|BAL32097.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-N]
gi|359277749|dbj|BAL35266.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803 substr.
PCC-P]
gi|407958268|dbj|BAM51508.1| RNA polymerase sigma factor [Bacillus subtilis BEST7613]
gi|451780476|gb|AGF51445.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 369
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/116 (39%), Positives = 72/116 (62%), Gaps = 1/116 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-SCRDLKSELHSGN 327
LL+A EE EL QI+ L+ E + +L Q R P+L EW +A+ R + L+
Sbjct: 71 LLSAAEEVELARQIRLLVSAEDVRQQLTQQLERTPSLQEWGQALEFPQVRQFEIWLYQLR 130
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 131 AAKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPDKGYKFST 186
Score = 55.1 bits (131), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 46/69 (66%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
D+ + L R+ V L +L +E ++ LR+GI + +L EVGN+F LS+ERVRQ++
Sbjct: 290 DLMNESMLRREIVEVLAEVLTEREMEVICLRYGIASHQSYTLEEVGNMFNLSRERVRQIQ 349
Query: 450 SRALYRLKQ 458
S+A+ +L++
Sbjct: 350 SKAMRKLRR 358
>gi|308205502|gb|ADO18992.1| RNA polymerase sigma 70 subunit [Nostoc flagelliforme str.
Sunitezuoqi]
Length = 165
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 45/113 (39%), Positives = 71/113 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E +Q ++ +E+++S L Q REPT E A ++G S +++S LH G
Sbjct: 21 LLTPEQEITNARLVQQMMAIEEQRSNLALQLNREPTTRELATSLGQSEAEVESILHQGER 80
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+++K++ ANLRLVV +AK+YQ R + DL+QEG++GL + VEK F
Sbjct: 81 AKQKMVTANLRLVVAIAKKYQNRNLEFLDLIQEGTLGLYRGVEKLIQTRATNF 133
>gi|78214100|ref|YP_382879.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CC9605]
gi|78198559|gb|ABB36324.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. CC9605]
Length = 377
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 77/248 (31%), Positives = 118/248 (47%), Gaps = 53/248 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELI--------------------AQIQDLIRLEKEKS 293
D LRL+L LLT +EE L A I +L RLE+ +
Sbjct: 20 TDLLRLYLQDIGRVDLLTNEEEVTLARLVQRREALLSQQQKLAESDAAIGELHRLEELQR 79
Query: 294 KLQSQFGREPTLIEWAKAIGL----------------------SCRDLKSELHSGNSSRE 331
+ +Q PT EWA+A L +DLK L +G +++
Sbjct: 80 REANQHSHWPTKQEWARAADLPLPELQQRIDRGYQAWAEQAQLEAKDLKLALRNGRRAKD 139
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
+I ANLRLVV VAK+YQ RG+ + DL+QEG++GL ++VEKF P G RF+
Sbjct: 140 HMIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 199
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ +G+ S++++ G+S++
Sbjct: 200 GI-TRAIATQSRTIRLPV-HVTEKLNRIKR--VQQEIASNEGRIASIADLARELGISEDT 255
Query: 445 VRQLESRA 452
VRQ +R
Sbjct: 256 VRQTLARV 263
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 48/74 (64%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + +LL L +E ++R RFG+ED P++L+++G LS+ER
Sbjct: 288 GHATPEQTLTHDELHNDLEHLLDELTSREAAVLRRRFGLEDDTPQTLAQIGEELKLSRER 347
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 348 VRQIETRALLKLRQ 361
>gi|443316869|ref|ZP_21046297.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
gi|442783541|gb|ELR93453.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Leptolyngbya sp. PCC 6406]
Length = 443
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 61/198 (30%), Positives = 97/198 (48%), Gaps = 37/198 (18%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS------------- 328
++ + L + +L S G P+L WA+ G+S DLK L SG
Sbjct: 135 LERYVHLMDTRDRLTSHLGHRPSLERWAETAGISVVDLKPTLSSGKRHWAELASLTVAEL 194
Query: 329 ---------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 195 EEAIREGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 254
Query: 380 RFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
RF+ G+ I+ Q + +R H+ L + +R I + + G+ +
Sbjct: 255 RFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQRKISQ-----DQGRTPT 308
Query: 431 LSEVGNIFGLSKERVRQL 448
L +V ++ +VR++
Sbjct: 309 LDDVARELDMTAAQVREV 326
Score = 72.4 bits (176), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 55/194 (28%), Positives = 95/194 (48%), Gaps = 35/194 (18%)
Query: 266 TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T L I + L +++K + K+ GR PTL + A+ + ++ ++ L
Sbjct: 269 TRAIATQSRTIRLPVHITEKLNKIKKAQRKISQDQGRTPTLDDVARELDMTAAQVREVLL 328
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
+ ++ L V K+ R L DLL+ S+
Sbjct: 329 R--------VPRSVSLETKVGKE---RDTELGDLLETDSIS------------------- 358
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
P+ + ++ +R+ ++ L+ L +ER ++RLRFG+ DG P SL+E+G LS+ER
Sbjct: 359 ----PEELLMREALRRDLQQLMADLTDREREVIRLRFGLGDGNPFSLAEIGRALDLSRER 414
Query: 445 VRQLESRALYRLKQ 458
VRQ+ES+AL +L+Q
Sbjct: 415 VRQIESKALQKLRQ 428
>gi|17231741|ref|NP_488289.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
gi|8489803|gb|AAF75759.1|AF262218_1 group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
gi|17133384|dbj|BAB75948.1| group 2 sigma 70-type sigma factor F [Nostoc sp. PCC 7120]
Length = 390
Score = 90.5 bits (223), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 73/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + ++ LQ Q G+ PT + A + ++ + L++ L+ G
Sbjct: 92 LLKPDEEVELARRVRFLEEVRDLQADLQLQIGQHPTKAQVAGQLEITEKQLENRLYQGRV 151
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 152 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 205
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 308 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 367
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 368 IQSKAMRKLRRPHIAKRLKGW 388
>gi|297608012|ref|NP_001061065.2| Os08g0163400 [Oryza sativa Japonica Group]
gi|255678168|dbj|BAF22979.2| Os08g0163400 [Oryza sativa Japonica Group]
Length = 520
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 80/126 (63%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 206 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 265
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 266 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 325
Query: 378 GCRFAN 383
G R +
Sbjct: 326 GFRIST 331
Score = 39.7 bits (91), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 40/64 (62%), Gaps = 4/64 (6%)
Query: 398 MRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYR 455
+++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVRQ+ A+ +
Sbjct: 446 LKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVRQVGLIAMEK 503
Query: 456 LKQS 459
LK +
Sbjct: 504 LKHA 507
>gi|282895663|ref|ZP_06303788.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
gi|281199357|gb|EFA74222.1| sigF (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
Length = 396
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/114 (40%), Positives = 72/114 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ QFG T E A L+ + L++ L+ G
Sbjct: 98 LLKPDEEVELAHRVRFLEEVKDLQAALEEQFGHSATKGEIANKFDLNEKQLENRLYQGRV 157
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 158 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 211
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 54/81 (66%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L +E+ ++ LR+G+ +P +L EVGNIF LS+ERVRQ
Sbjct: 314 PEAKMNENMMRQEIWEVLGDVLTSREKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQ 373
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 374 IQSKAMRKLRRPHIAKRLKGW 394
>gi|86605925|ref|YP_474688.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab]
gi|86554467|gb|ABC99425.1| RNA polymerase sigma factor [Synechococcus sp. JA-3-3Ab]
Length = 318
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 46/137 (33%), Positives = 84/137 (61%), Gaps = 7/137 (5%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
++E + D + FL LLTA+EE L Q+Q ++ L +++ + +S L
Sbjct: 1 MAENLELQDAVGRFLKIIGRYSLLTAEEELHLAHQVQRMMALLEQRRQHES-------LE 53
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+W++ +G+ +L+ L G +++++++ NLRLVV +AK+Y+ RG+ DL+QEG++GL
Sbjct: 54 DWSRRLGIPLEELQQILRQGEAAKKRMVECNLRLVVSIAKRYRNRGLPFLDLIQEGTIGL 113
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P G +F+
Sbjct: 114 TRAVEKFDPTRGYKFST 130
Score = 43.9 bits (102), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 35/50 (70%)
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ VR L++ L+ +E+ ++ R+G++ K +L E+G GLS+ERVRQ+E
Sbjct: 242 EEVRALVSQLSEREQQVIVARYGLDGSKGLTLREIGEHIGLSRERVRQIE 291
>gi|9837536|gb|AAG00589.1|AF288784_1 SigC [Synechococcus elongatus PCC 7942]
Length = 398
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 70/247 (28%), Positives = 116/247 (46%), Gaps = 58/247 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEE----------FELIAQ-----------IQDLIRLEKEK 292
D +RL+L +LL DEE +L+A ++D + L++ +
Sbjct: 41 TDLIRLYLQDIGRVRLLGRDEEVSEARWVQRYMQLLAVRNCVAVEEGGVLKDYVDLQEGR 100
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELH----------------------SGNSSR 330
+L +Q G P+ WAK + S +L+ L G ++
Sbjct: 101 DRLTAQLGHRPSFEAWAKIVDCSLTELRQALQLGLHRWAEVCQLDLEELKQVCKEGQRAK 160
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN------- 383
+ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 161 DHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 220
Query: 384 TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
G+ I+ Q + +R HV LT + +R I + + G+ +L E+ ++
Sbjct: 221 QGI-TRAIATQSRTIRLPVHVTEKLTRIKKAQRKIAQTK-----GRTANLEEIAQELEMT 274
Query: 442 KERVRQL 448
++VR++
Sbjct: 275 PDQVREV 281
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 54/76 (71%), Gaps = 4/76 (5%)
Query: 386 VEIPDISVQKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D + +++L ++ + N LL LN +ER ++R+RFG+ DG+ SL+E+G + LS
Sbjct: 307 LETTDFTPEERLTQESLSNDLQRLLLELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLS 366
Query: 442 KERVRQLESRALYRLK 457
+ERVRQ+E++AL +L+
Sbjct: 367 RERVRQIEAKALQKLR 382
>gi|2780746|dbj|BAA24364.1| plastid RNA polymerase sigma factor [Oryza sativa Japonica Group]
Length = 519
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 80/126 (63%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 205 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 264
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 265 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 324
Query: 378 GCRFAN 383
G R +
Sbjct: 325 GFRIST 330
Score = 39.7 bits (91), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 40/64 (62%), Gaps = 4/64 (6%)
Query: 398 MRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYR 455
+++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVRQ+ A+ +
Sbjct: 445 LKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVRQVGLIAMEK 502
Query: 456 LKQS 459
LK +
Sbjct: 503 LKHA 506
>gi|148240795|ref|YP_001226182.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH
7803]
gi|147849334|emb|CAK24885.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 376
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 80/248 (32%), Positives = 121/248 (48%), Gaps = 53/248 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFEL--------------------IAQIQDLIRLEKEKS 293
ND LRL+L LLT++EE L IA I+ L+ LE+ +
Sbjct: 19 NDLLRLYLQDIGRVDLLTSEEEVTLSRQVQQRERLLVQERDLSTRIAAIRVLLDLEELQQ 78
Query: 294 KLQSQFGREPTLIEWAKAI----------------------GLSCRDLKSELHSGNSSRE 331
+ + PT EWA+A GL ++L+ L G +R+
Sbjct: 79 REANHISHWPTRQEWARAAEMPLVELNRVLNEGYTLWAEESGLEAKELQRRLREGRRARD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ E G+ S+S++ G+S++
Sbjct: 199 GI-TRAIATQSRTIRLPV-HITEKLNRIKR--VQQEIASEQGRLASVSDLAKELGVSEDT 254
Query: 445 VRQLESRA 452
VRQ +R
Sbjct: 255 VRQTLARV 262
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 51/74 (68%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + + +LL LNP+E ++R RFG+ED P++L+E+G LS+ER
Sbjct: 287 GHATPEQTLTRDALHDDLEHLLDELNPREAEVIRSRFGLEDDTPRTLAEIGEAMALSRER 346
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 347 VRQIETRALLKLRQ 360
>gi|332709863|ref|ZP_08429819.1| RNA polymerase, sigma subunit, RpsC/SigC [Moorea producens 3L]
gi|332351234|gb|EGJ30818.1| RNA polymerase, sigma subunit, RpsC/SigC [Moorea producens 3L]
gi|332651114|gb|AEE81158.1| putative RNA polymerase sigma subunit [Moorea producens 3L]
Length = 417
Score = 90.1 bits (222), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 60/174 (34%), Positives = 82/174 (47%), Gaps = 44/174 (25%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ---DLIRLEKEKS----------------- 293
D +RL+L +LL DEE ++Q L+RL KS
Sbjct: 59 TDLVRLYLQEIGRVRLLRRDEEVSEAQKVQRYMKLLRLRNNKSAISEDKVMERFVHLIEI 118
Query: 294 --KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+L SQ G P+L WA A G+ LK + +G +
Sbjct: 119 HDRLASQLGHRPSLERWATAAGIDVSQLKPSMSAGKLRWAELAELTSKELEQVQAEGLQA 178
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 KEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFST 232
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ +++ ++ LL L +ER ++R+RFG+ D +P SL+E+G LS+ERVRQ+
Sbjct: 333 PEEVLMREALQRDLQQLLADLTNRERDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQI 392
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 393 EAKALQKLRQ 402
>gi|414591842|tpg|DAA42413.1| TPA: sigma factor SIG2B [Zea mays]
gi|414866057|tpg|DAA44614.1| TPA: sigma factor SIG2B [Zea mays]
gi|414872289|tpg|DAA50846.1| TPA: sigma factor SIG2B [Zea mays]
Length = 528
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 70/116 (60%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTA++E E IQDL++LE + ++ EPT +WA A G L+ L+ G
Sbjct: 226 RLLTAEQEVEFSEGIQDLLKLEAIQKEVAQYNAGEPTFSQWAAAAGTDENTLRRRLNHGV 285
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ +++ +N+RLV+ +AK+++G G+ DL+Q+G GL++ EKF G RF+
Sbjct: 286 YCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFST 341
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/170 (27%), Positives = 84/170 (49%), Gaps = 25/170 (14%)
Query: 296 QSQFGREPT-LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
Q+Q R P + E + + CR L EL S+ E ++ G++
Sbjct: 358 QTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDT---------------GMT 402
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCR-------FANTGVEIPDISVQKQLMRQHVRNLLT 407
+ + E +M L K F + GC +T E + ++ + LM++ V L
Sbjct: 403 IRRV--EAAMSLPKYSVSFTSKVGCTDVTYQEIMPDTSAETAEETLHRWLMKKDVNTALD 460
Query: 408 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L+P+E+ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 461 SLSPREKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 510
>gi|162458864|ref|NP_001104924.1| sigma-like factor2B [Zea mays]
gi|4336608|gb|AAD17855.1| sigma factor SIG2B [Zea mays]
Length = 527
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 42/116 (36%), Positives = 70/116 (60%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTA++E E IQDL++LE + ++ EPT +WA A G L+ L+ G
Sbjct: 225 RLLTAEQEVEFSEGIQDLLKLEAIQKEVAQYNAGEPTFSQWAAAAGTDENTLRRRLNHGV 284
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ +++ +N+RLV+ +AK+++G G+ DL+Q+G GL++ EKF G RF+
Sbjct: 285 YCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFST 340
Score = 67.4 bits (163), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 84/170 (49%), Gaps = 25/170 (14%)
Query: 296 QSQFGREPT-LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
Q+Q R P + E + + CR L EL S+ E ++ G++
Sbjct: 357 QTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDT---------------GMT 401
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCR-------FANTGVEIPDISVQKQLMRQHVRNLLT 407
+ + E +M L K F + GC +T E + ++ + LM++ V L
Sbjct: 402 IRRV--EAAMSLPKYSVSFTSKVGCTDVTYQEIMPDTSAETAEETLHRWLMKKDVNTALD 459
Query: 408 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L+P+++ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 460 SLSPRKKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 509
>gi|298492420|ref|YP_003722597.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae'
0708]
gi|298234338|gb|ADI65474.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae'
0708]
Length = 389
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 74/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ + G++P+ E A ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVKDLQAALEEELGQQPSRSEVAAKFEMTEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 204
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 307 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 366
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 367 IQSKAMRKLRRPHIAKRLKGW 387
>gi|86608149|ref|YP_476911.1| RNA polymerase sigma factor, group 1 [Synechococcus sp.
JA-2-3B'a(2-13)]
gi|86556691|gb|ABD01648.1| RNA polymerase sigma factor, group 1 [Synechococcus sp.
JA-2-3B'a(2-13)]
Length = 361
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 45/110 (40%), Positives = 72/110 (65%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE EL +IQ + +++ + + + Q G +P+ A+A+ +S L+S + G ++ KL
Sbjct: 69 EEIELSRKIQQKLLIDQARQEWRQQRGEDPSDEALAEALQISVSTLRSRIRQGEQAQRKL 128
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
INANLRLVV VAK+Y RG+ DL+QEG++GL+++ EKF + G RF+
Sbjct: 129 INANLRLVVSVAKKYLNRGVPFLDLIQEGNIGLIRATEKFNAERGFRFST 178
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 55/191 (28%), Positives = 91/191 (47%), Gaps = 36/191 (18%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ +++ L R +E KLQ GR PT E A+A+G+ + L+ +
Sbjct: 205 MVDKVRLLKRTNRELMKLQ---GRRPTEAELAEALGIKVKKLRMIQQAAALP-------- 253
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L L V V ++ + R L DLLQ+ E P + Q
Sbjct: 254 LSLDVPVGQEGESR---LGDLLQDERQ----------------------EQPFQGILVQS 288
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+Q VR+ + L P ER ++ LR+G++ + ++L EVG+ F L++ER+RQ+E AL +L+
Sbjct: 289 MQQDVRSAMQTLKPIERQVLELRYGLDGQQARTLREVGDHFNLTRERIRQIERDALRKLR 348
Query: 458 QSLGGKASYGY 468
+A Y
Sbjct: 349 VGYSSRALAQY 359
>gi|323388685|gb|ADX60147.1| SIGMA70-like transcription factor [Zea mays]
Length = 428
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 44/121 (36%), Positives = 72/121 (59%), Gaps = 3/121 (2%)
Query: 263 GPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322
GP +LLTA++E E IQDL++LE + ++ EPT +WA A G L+
Sbjct: 124 GP---RLLTAEQEVEFSEGIQDLLKLEAIQKEVAQYNAGEPTFSQWAAAAGTDENTLRRR 180
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L+ G + +++ +N+RLV+ +AK+++G G+ DL+Q+G GL++ EKF G RF+
Sbjct: 181 LNHGVYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFS 240
Query: 383 N 383
Sbjct: 241 T 241
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/170 (27%), Positives = 84/170 (49%), Gaps = 25/170 (14%)
Query: 296 QSQFGREPT-LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
Q+Q R P + E + + CR L EL S+ E ++ G++
Sbjct: 258 QTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDT---------------GMT 302
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCR-------FANTGVEIPDISVQKQLMRQHVRNLLT 407
+ + E +M L K F + GC +T E + ++ + LM++ V L
Sbjct: 303 IRRV--EAAMSLPKYSVSFTSKVGCTDVTYQEIMPDTSAETAEETLHRWLMKKDVNTALD 360
Query: 408 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L+P+E+ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 361 SLSPREKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 410
>gi|428203439|ref|YP_007082028.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
gi|427980871|gb|AFY78471.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Pleurocapsa sp. PCC 7327]
Length = 407
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 97/204 (47%), Gaps = 37/204 (18%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------- 328
A I + + +L SQ G P+L WA A+ ++ +LK L G
Sbjct: 97 AAIARFVEIVDTHDRLVSQLGLRPSLERWAAAVKMNVFELKQALTEGKRHWAEIAGMDVQ 156
Query: 329 -----------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 157 ELDRIQKAGIRAKEHMIEANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 216
Query: 378 GCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKP 428
G RF+ G+ I+ Q +++R H+ L + +R I + E G+P
Sbjct: 217 GYRFSTYAYWWIRQGI-TRAIATQSRIIRLPVHITEKLNKIKKVQRQITQ-----EKGRP 270
Query: 429 KSLSEVGNIFGLSKERVRQLESRA 452
+ E+ ++ +VR + R
Sbjct: 271 ATAEEIAKQLEMTSGQVRDMLMRV 294
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 37/117 (31%), Positives = 67/117 (57%), Gaps = 2/117 (1%)
Query: 344 VAKQYQGRGISLHDLLQE--GSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH 401
+AKQ + + D+L S+ L V K K T P+ ++ + +R+
Sbjct: 276 IAKQLEMTSGQVRDMLMRVPRSVSLEVKVGKDKDTELVDLLETEDSSPEDNLVSESLRKD 335
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+++LL L +ER ++++R+G +DG SL+++G LS+ERVRQ+E++AL +L+Q
Sbjct: 336 LQHLLADLTTREREVIQMRYGFQDGTSYSLADIGRALDLSRERVRQIEAKALQKLRQ 392
>gi|125602291|gb|EAZ41616.1| hypothetical protein OsJ_26150 [Oryza sativa Japonica Group]
Length = 420
Score = 89.7 bits (221), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 80/125 (64%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 106 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 165
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 166 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 225
Query: 378 GCRFA 382
G R +
Sbjct: 226 GFRIS 230
Score = 39.7 bits (91), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P ++ +++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 337 PWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 394
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 395 QVGLIAMEKLKHA 407
>gi|407327701|dbj|BAM45408.1| sigma factor 1 [Marchantia polymorpha]
Length = 574
Score = 89.4 bits (220), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 73/222 (32%), Positives = 112/222 (50%), Gaps = 19/222 (8%)
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
+T +S KA KK EG D L +L LTA+EE L +I+ L++E+
Sbjct: 235 KTESSSKADKAKK-PEGV--QDYLSTYLRDITKIDRLTAEEEIMLSKKIRTGYILKEERK 291
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
K + G T +WA + ++ DL ++LH +R++++ ANLRLVV V KQY G+
Sbjct: 292 KFERALGHPITKDQWAGHMHMAVGDLDAQLHEAELARDRMVMANLRLVVSVVKQYNCEGL 351
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------TGV--EIPDISVQKQLMRQHVRN 404
+ DL+QEGS+GL+K VEKF G + + GV I D S +L HV +
Sbjct: 352 EVPDLIQEGSIGLLKGVEKFDHTRGYKLSTYVHWWIRQGVTRAIADHSRTVRLP-VHVHD 410
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
L + R R+ ++DG P ++ + LS +V+
Sbjct: 411 TLGRIR---RTRARM---LQDGAPATVQTLSKALNLSDNQVK 446
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 49/81 (60%), Gaps = 3/81 (3%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIE--DGKPKSLSEVGNIFGLSKERV 445
P V+K M++ V +L T L +ER I+++ +G++ DG P SL + + +G+S+ERV
Sbjct: 489 PWAVVEKAHMKEDVDKMLNTQLGSREREIIKMHYGVDSVDGYPMSLESISHRYGVSRERV 548
Query: 446 RQLESRALYRLKQSLGGKASY 466
RQLE A +L+ + G Y
Sbjct: 549 RQLERAAKRKLQTTNQGLDKY 569
>gi|75907421|ref|YP_321717.1| sigma 28 (flagella/sporulation) [Anabaena variabilis ATCC 29413]
gi|75701146|gb|ABA20822.1| Sigma 28 (Flagella/Sporulation) [Anabaena variabilis ATCC 29413]
Length = 378
Score = 89.4 bits (220), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 72/114 (63%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + ++ LQ Q G PT + A + ++ + L++ L+ G
Sbjct: 80 LLKPDEEVELARRVRFLEEVRDLQADLQLQLGLHPTKAQVAAQLEITEKQLENRLYQGRV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 193
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 296 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 355
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 356 IQSKAMRKLRRPHIAKRLKGW 376
>gi|427418816|ref|ZP_18908999.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7375]
gi|425761529|gb|EKV02382.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7375]
Length = 434
Score = 89.4 bits (220), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 38/77 (49%), Positives = 55/77 (71%)
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+WA+ +G+S ++L G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 173 QWAELVGMSVQELDEACSEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGL 232
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 233 ERAVEKFDPTKGYRFST 249
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R+ + LL L +E+ ++RLRFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+
Sbjct: 359 LRRDLHQLLADLTTREQEVIRLRFGLGDGVPYSLAEIGRTLELSRERVRQIESKALQKLR 418
Query: 458 Q 458
Q
Sbjct: 419 Q 419
>gi|427718372|ref|YP_007066366.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 7507]
gi|427350808|gb|AFY33532.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 7507]
Length = 416
Score = 89.4 bits (220), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 49/126 (38%), Positives = 69/126 (54%), Gaps = 22/126 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------ 327
A I+ +RL + + +L S+ G P+L WA G+ DLK L +G
Sbjct: 106 AVIEPYLRLIEVQERLTSELGHRPSLERWATTAGIVLSDLKPTLANGKRRWAEIAKLTVE 165
Query: 328 ----------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 166 ELEQIQTQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 225
Query: 378 GCRFAN 383
G RF+
Sbjct: 226 GYRFST 231
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 58/96 (60%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ +++LL L +ER ++ +RFG
Sbjct: 306 SVSLETKVGKDKDTELGELLETDCVTPEEMLMRESLQRDLQHLLADLTSRERDVILMRFG 365
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 366 LADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|125560253|gb|EAZ05701.1| hypothetical protein OsI_27933 [Oryza sativa Indica Group]
Length = 372
Score = 89.4 bits (220), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 80/125 (64%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 58 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 117
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 118 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 177
Query: 378 GCRFA 382
G R +
Sbjct: 178 GFRIS 182
Score = 39.3 bits (90), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P ++ +++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 289 PWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 346
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 347 QVGLIAMEKLKHA 359
>gi|37806470|dbj|BAC99905.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 388
Score = 89.4 bits (220), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 80/125 (64%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 74 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 133
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 134 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 193
Query: 378 GCRFA 382
G R +
Sbjct: 194 GFRIS 198
Score = 39.7 bits (91), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P ++ +++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 305 PWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 362
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 363 QVGLIAMEKLKHA 375
>gi|126697159|ref|YP_001092045.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9301]
gi|126544202|gb|ABO18444.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9301]
Length = 344
Score = 89.4 bits (220), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 81/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E L Q+Q+ +++E+ + ++ G +P++ E + + L
Sbjct: 35 DLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEISELTGDKPSIDELSTKLNL 94
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +K L +G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 95 STSVIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 154
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 155 PARGYKFST 163
Score = 52.4 bits (124), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 96/223 (43%), Gaps = 46/223 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 146 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 205
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 206 QEMSRTPTVSELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 254
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 255 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 290
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 291 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRR 333
>gi|428226816|ref|YP_007110913.1| RNA polymerase, sigma subunit, RpsC/SigC [Geitlerinema sp. PCC
7407]
gi|427986717|gb|AFY67861.1| RNA polymerase, sigma subunit, RpsC/SigC [Geitlerinema sp. PCC
7407]
Length = 414
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 64/205 (31%), Positives = 96/205 (46%), Gaps = 30/205 (14%)
Query: 201 GYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLF 260
G L E+++ P L++R +R ++ E R +++SE +RL
Sbjct: 33 GTSLNELEELVHPDGLQKRPGRRTTDLVRMYLQEIGRVRLLGRDEEVSEAQQVQRYMRLL 92
Query: 261 LWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E R E IQ +++ + + L S G P+L WA+A G+ +LK
Sbjct: 93 ----ELRDEAAQAEG----GTIQRYVQIIEARDTLTSHLGHRPSLERWAEAAGVDVTELK 144
Query: 321 SELHSGNS----------------------SREKLINANLRLVVHVAKQYQGRGISLHDL 358
L SG ++E +I ANLRLVV VAK+YQ RG+ L DL
Sbjct: 145 PILASGKQRWAELTGLTIQELEQIQREGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDL 204
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEG++GL ++VEKF P G RF+
Sbjct: 205 IQEGTLGLERAVEKFDPTKGYRFST 229
Score = 68.6 bits (166), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 54/77 (70%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D++ ++ LMR+ +R LL L +ER ++++RFG+ DG P SL+E+G LS
Sbjct: 323 LETDDVTPEETLMRESLRRDLQQLLADLTSRERDVIQMRFGLGDGHPYSLAEIGRALDLS 382
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 383 RERVRQIEAKALQKLRQ 399
>gi|427709662|ref|YP_007052039.1| RpoD subfamily RNA polymerase sigma-70 subunit [Nostoc sp. PCC
7107]
gi|427362167|gb|AFY44889.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Nostoc sp. PCC
7107]
Length = 332
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 53/129 (41%), Positives = 78/129 (60%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL ++E Q+Q ++ L K KL Q R+PT +E+A+ I L
Sbjct: 23 DLVRTYLHEIGRIPLLDHEQEINFGKQVQQMMSLLTAKEKLVIQLNRQPTQLEFAEYIKL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L +L G ++E++I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF
Sbjct: 83 SESELLQQLQQGYQAKEQMIRANLRLVVSIAKKYQRRNLDFLDLIQEGSLGLERGVEKFD 142
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 143 PTRGYKFST 151
Score = 56.2 bits (134), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 45/174 (25%), Positives = 83/174 (47%), Gaps = 34/174 (19%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L ++++ + +L + G P+ E A + L ++++ L L L L + V
Sbjct: 182 LNKIKRTQRELAQKLGHTPSTTEIAAELSLDPKEIRDYL--------LLARQPLSLELRV 233
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
+ R LHD+L++ + P+ + ++Q++ +
Sbjct: 234 GPE---RDTELHDMLEDDGLS-----------------------PESYADQSFLQQNIHD 267
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
LL+ L ++R I+ LRFG+ + SLSE+G G+S+ERVRQLE +AL L++
Sbjct: 268 LLSKLTAQQREILTLRFGLTNENTLSLSEIGQRMGISRERVRQLELQALMTLRR 321
>gi|298490007|ref|YP_003720184.1| RpoD subfamily RNA polymerase sigma 70 subunit ['Nostoc azollae'
0708]
gi|298231925|gb|ADI63061.1| RNA polymerase, sigma 70 subunit, RpoD subfamily ['Nostoc azollae'
0708]
Length = 417
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 58/173 (33%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q +RL + +
Sbjct: 60 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLRLRIVLANAAKQGDTVIVPYQRLIEVQ 119
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WAK G+ DLK L G ++
Sbjct: 120 ERLSSELGHRPSLERWAKTAGIDLADLKPTLLEGKRRWAEIAKLKVEELENVQSQGLQAK 179
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 180 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 232
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 53/77 (68%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E I+ ++ LMR+ ++ +LL L +ER ++ +RFG+ DG P SL+E+G LS
Sbjct: 326 LETDSITPEEMLMRESLQKDLHHLLADLTSRERDVILMRFGLSDGHPYSLAEIGRALDLS 385
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 386 RERVRQIESKALQKLRQ 402
>gi|428306280|ref|YP_007143105.1| RNA polymerase, sigma subunit, RpsC/SigC [Crinalium epipsammum PCC
9333]
gi|428247815|gb|AFZ13595.1| RNA polymerase, sigma subunit, RpsC/SigC [Crinalium epipsammum PCC
9333]
Length = 422
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 51/124 (41%), Positives = 69/124 (55%), Gaps = 22/124 (17%)
Query: 282 IQDLIRLEKEKSKLQSQFGR------------------EPTLI----EWAKAIGLSCRDL 319
+Q IRL + +L SQ G +PTL+ WA+ GL+ DL
Sbjct: 114 LQLYIRLIEAHDRLASQLGHRPSLERWAAEAHIALSELKPTLVAGKRSWAEVAGLTVPDL 173
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG+MGL ++VEKF P G
Sbjct: 174 EQIQKEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTMGLERAVEKFDPTKGY 233
Query: 380 RFAN 383
RF+
Sbjct: 234 RFST 237
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 35/77 (45%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DIS ++ LMR+ ++ LL L +ER ++ +RFG+ DG SLSE+G LS
Sbjct: 331 LEAEDISPEELLMREALQIELLKLLADLTSRERDVISMRFGMVDGNVYSLSEIGRALDLS 390
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 391 RERVRQIESKALQKLRQ 407
>gi|4105839|gb|AAD02575.1| RNA polymerase sigma factor [Cyanidium caldarium]
Length = 589
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 42/114 (36%), Positives = 70/114 (61%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
L+ +EE E+ +I LE + L+ + GR P EWA +S +L+ +L G +
Sbjct: 272 LSLEEEKEICQEIAFFTHLEAVREDLRRRIGRLPREHEWAMETNMSVSELRGKLIKGRRA 331
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ +++ ANLRLV+ AK+++ RG++ DL+QEGS+GL++ VEK+ G RF+
Sbjct: 332 KNRMVAANLRLVICFAKRFRNRGVAFQDLVQEGSIGLIRGVEKYDANRGFRFST 385
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 54/190 (28%), Positives = 96/190 (50%), Gaps = 30/190 (15%)
Query: 269 LLTADEEFELIAQIQDLIR-LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL + F L + ++I+ + + +L + GREPT +E A +G+
Sbjct: 399 LLECSKMFRLPVHVNEMIKEIRRCSYELMNILGREPTKLEIAMKVGMP------------ 446
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
EK+I R ++ + RG L+ ++G + S +T
Sbjct: 447 --EEKVIFLLQRAQTALSLEMPLRGSD--SSLESRTLGDVVS-------------STASP 489
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ S +R + L+ L+ +ER ++R+RFG++DG+ KSL EVG++F +++ERVRQ
Sbjct: 490 SPEDSAFGTSLRYDLERALSQLDFREREVIRMRFGLDDGRTKSLGEVGSLFCVTRERVRQ 549
Query: 448 LESRALYRLK 457
+E+RAL +L+
Sbjct: 550 IETRALRKLR 559
>gi|411117153|ref|ZP_11389640.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoriales
cyanobacterium JSC-12]
gi|410713256|gb|EKQ70757.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoriales
cyanobacterium JSC-12]
Length = 414
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 52/135 (38%), Positives = 73/135 (54%), Gaps = 25/135 (18%)
Query: 271 TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK---------- 320
TAD+E IQ ++L + +L + G P+L WA G++ DLK
Sbjct: 98 TADKE---AGAIQQYVKLIEAHDRLTAHLGHRPSLERWATEAGVTVADLKPIMAEGKREW 154
Query: 321 --------SELHS----GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
EL + G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL +
Sbjct: 155 AKVAKLSVEELETIQMEGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLER 214
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF P G RF+
Sbjct: 215 AVEKFDPTKGYRFST 229
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 34/77 (44%), Positives = 54/77 (70%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DI+ + LMR+ +R LL L +ER ++++RFG+ DG+P SL+E+G LS
Sbjct: 323 LETDDITPEDTLMREALRRDLQQLLADLTSRERDVIQMRFGLGDGQPYSLAEIGRALDLS 382
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 383 RERVRQIEAKALQKLRQ 399
>gi|168036108|ref|XP_001770550.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens]
gi|14669828|dbj|BAB62006.1| PpSIG1 [Physcomitrella patens]
gi|14669830|dbj|BAB62007.1| PpSIG1 [Physcomitrella patens]
gi|162678258|gb|EDQ64719.1| plastid sigma factor SIG1 [Physcomitrella patens subsp. patens]
Length = 677
Score = 89.0 bits (219), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 75/129 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D L +L LLT EE L +++ + L +E+ KL ++ G P+ EWA + L
Sbjct: 355 DYLTTYLREITKINLLTKQEEVFLSKKLRIGLNLLEERKKLAAELGYVPSNEEWAPHMNL 414
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S DL +L +R+K++ ANLRLVV VAKQY G+ + DL+QEGS+GL++ VEKF
Sbjct: 415 SVGDLVRKLGEAEWARDKMVMANLRLVVSVAKQYHSFGLEMADLIQEGSIGLLRGVEKFD 474
Query: 375 PQAGCRFAN 383
G + +
Sbjct: 475 HTRGYKLST 483
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/72 (45%), Positives = 47/72 (65%), Gaps = 3/72 (4%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGI--EDGKPKSLSEVGNIFGLSKERV 445
P V++ LM+ V LLT L P+ER IVRL +G+ EDG SL + +G+S+ERV
Sbjct: 590 PWTIVERMLMKDDVDKLLTSQLGPRERDIVRLHYGVGREDGSVMSLESISYRYGVSRERV 649
Query: 446 RQLESRALYRLK 457
RQLE+ A+ +L+
Sbjct: 650 RQLETAAMRKLQ 661
>gi|157414236|ref|YP_001485102.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9215]
gi|157388811|gb|ABV51516.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9215]
Length = 344
Score = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 92/157 (58%), Gaps = 5/157 (3%)
Query: 232 NHETYNSRKASVKKKLS-----EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+H T+ S + ++ KL+ + + D +R +L LL+ ++E L Q+Q+ +
Sbjct: 7 HHLTFMSSETIIENKLASIATLKSSNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYM 66
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
+E+ + + G +P++ E + + LS +K L +G ++E+++ ANLRLVV VAK
Sbjct: 67 EVERAELEFIELTGDKPSIDELSTKLNLSTSIIKKRLRAGQRAKERMVAANLRLVVSVAK 126
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 127 KYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFST 163
Score = 52.0 bits (123), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 96/223 (43%), Gaps = 46/223 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 146 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 205
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 206 QEMSRTPTVSELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 254
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 255 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 290
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 291 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRR 333
>gi|119512139|ref|ZP_01631231.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414]
gi|119463229|gb|EAW44174.1| RNA polymerase sigma-like factor [Nodularia spumigena CCY9414]
Length = 442
Score = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 74/134 (55%), Gaps = 25/134 (18%)
Query: 272 ADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN---- 327
A E E++A +L+++++ +L S+ G P+L WA G+ DLK L +G
Sbjct: 127 AKEGDEIVAPFLNLVQVQE---RLTSELGHRPSLERWANTAGIELVDLKPTLANGKRRWA 183
Query: 328 ------------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++
Sbjct: 184 EIAQLTVEELEQVQSQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERA 243
Query: 370 VEKFKPQAGCRFAN 383
VEKF P G RF+
Sbjct: 244 VEKFDPTKGYRFST 257
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 57/96 (59%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ + +LL L +ER ++ +RFG
Sbjct: 332 SVSLETKVGKDKDTELGELLETDCVTPEEMLMRESLQKDLHSLLADLTSRERDVILMRFG 391
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 392 LSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 427
>gi|254526733|ref|ZP_05138785.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
gi|221538157|gb|EEE40610.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
Length = 333
Score = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 80/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E L Q+Q+ + +E+ + +L G +P++ E + + L
Sbjct: 24 DLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERAELELIELAGDKPSIDELSTKLNL 83
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +K L +G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 84 STSIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 143
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 144 PARGYKFST 152
Score = 52.0 bits (123), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 96/223 (43%), Gaps = 46/223 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 135 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 194
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 195 QEMSRTPTVSELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 243
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 244 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 279
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 280 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRR 322
>gi|427709818|ref|YP_007052195.1| RNA polymerase, sigma subunit, RpsC/SigC [Nostoc sp. PCC 7107]
gi|427362323|gb|AFY45045.1| RNA polymerase, sigma subunit, RpsC/SigC [Nostoc sp. PCC 7107]
Length = 416
Score = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 49/126 (38%), Positives = 67/126 (53%), Gaps = 22/126 (17%)
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------ 327
A + +RL + + +L S+ G P+L WA G+ DLK L G
Sbjct: 106 AVVSPYLRLIEVQERLASELGHRPSLERWAATAGVQLSDLKPTLSEGKRRWAEIAKITVE 165
Query: 328 ----------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
S+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P
Sbjct: 166 ELEQIQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTK 225
Query: 378 GCRFAN 383
G RF+
Sbjct: 226 GYRFST 231
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 58/96 (60%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ ++NLL L +ER ++ +RFG
Sbjct: 306 SVSLETKVGKDKDTELGELLETDSVTPEEMLMRESLQRDLQNLLADLTTRERDVILMRFG 365
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 366 LADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|37806471|dbj|BAC99906.1| putative plastid RNA polymerase sigma factor [Oryza sativa Japonica
Group]
Length = 342
Score = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 45/125 (36%), Positives = 80/125 (64%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A ++ +S
Sbjct: 28 RIYLRGTVSKELLTHKQVVHLSHKIKDGIWLQQQRSKLKEKLGNEPSYKQLAHSLKISPP 87
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S +H +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 88 ELRSRMHESFLAREMLTMSNLRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 147
Query: 378 GCRFA 382
G R +
Sbjct: 148 GFRIS 152
Score = 38.5 bits (88), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 43/73 (58%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P ++ +++ V LL + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 259 PWHGFEEWYLKEEVNKLLNSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 316
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 317 QVGLIAMEKLKHA 329
>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 = 88.6 bits (218), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 43/115 (37%), Positives = 67/115 (58%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL EE EL Q++ ++ +E K R PT E A A G + L+ +L +
Sbjct: 169 LLQPTEEIELARQVRIIVEIEDYSEKASETLKRRPTHAELATAFGYTEGQLRQKLRQARA 228
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F+
Sbjct: 229 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFST 283
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 96/178 (53%), Gaps = 34/178 (19%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341
++ L +L+K + +L+ + R PT +E A A+ ++ L++ +++ +L L
Sbjct: 311 VEKLNKLKKAQRELRKELQRTPTEVEVAAALEMTPEQLRT--------LQQVQRKSLSLN 362
Query: 342 VHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH 401
V K G L +LL++G+ S+ P+ + + +MRQ
Sbjct: 363 HRVGK---GEDTELMELLEDGN-----SLS-----------------PESQISESMMRQE 397
Query: 402 VRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ ++LT +L +E+ I+ LR+G+ G+ +L EVG IF LS+ERVRQ++++A+ +L++
Sbjct: 398 ISDVLTEVLTEREKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKAMRKLRR 455
>gi|116071891|ref|ZP_01469159.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. BL107]
gi|116065514|gb|EAU71272.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. BL107]
Length = 355
Score = 88.2 bits (217), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 72/239 (30%), Positives = 116/239 (48%), Gaps = 51/239 (21%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQ--------------------DLIRLEKEKSKLQ 296
+RL+L LLT++EE L +Q +L RLE+ + +
Sbjct: 1 MRLYLQDIGRVDLLTSEEEVTLARLVQRRETLLKQQRELSDTNPAIGELHRLEELQRREA 60
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSE----------------------LHSGNSSREKLI 334
+ PT EWA+A GLS ++L+S L +G +++ +I
Sbjct: 61 NHHSHWPTKQEWARAAGLSLQELQSRIDAGYVAWAEQAAIEAKELKLSLRNGRRAKDHMI 120
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV------EI 388
ANLRLVV VAK+YQ RG+ + DL+QEG++GL ++VEKF P G RF+
Sbjct: 121 QANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQGMT 180
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
I+ Q + +R V ++ LN +R V+ +G+ S++++ G+S++ VRQ
Sbjct: 181 RAIATQSRTIRLPV-HVTEKLNRIKR--VQQEIASNEGRIASIADLARELGISEDTVRQ 236
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 47/74 (63%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + LL L +E ++R RFG+ED P++L+++G LS+ER
Sbjct: 266 GKATPEETLTHDELHNDLEGLLDELTTREAAVLRRRFGLEDDTPQTLAQIGEELKLSRER 325
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 326 VRQIETRALLKLRQ 339
>gi|354565057|ref|ZP_08984233.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353550183|gb|EHC19622.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 389
Score = 88.2 bits (217), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 43/114 (37%), Positives = 73/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ L+ + G +PT A + ++ + L++ L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVNEIQAALRQELGHQPTKASIAAHLQITEKQLENRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 204
Score = 65.9 bits (159), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 307 PEAKMNESMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 366
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 367 IQSKAMRKLRRPHIAKRLKGW 387
>gi|427738916|ref|YP_007058460.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
gi|427373957|gb|AFY57913.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Rivularia sp. PCC 7116]
Length = 378
Score = 88.2 bits (217), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 70/114 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ Q + G P AK +G+ + L+ L+ G
Sbjct: 80 LLKPDEEVELARRVRILEEVRQAQAAAQEKLGYFPDKAAIAKEMGIVQKQLEHRLYQGKV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 193
Score = 65.5 bits (158), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 296 PEARMNESMMRQEIWEVLGDVLTPREKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQ 355
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 356 IQSKAMRKLRRPHIAKRLKGW 376
>gi|218248849|ref|YP_002374220.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8801]
gi|257061911|ref|YP_003139799.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
8802]
gi|218169327|gb|ACK68064.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8801]
gi|256592077|gb|ACV02964.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 8802]
Length = 417
Score = 88.2 bits (217), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 63/196 (32%), Positives = 100/196 (51%), Gaps = 33/196 (16%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS------------- 328
IQ LI + + +L G P+ WAKA +S +LK+ L G
Sbjct: 109 IQQLIEMAEIHDRLFISLGYRPSWDRWAKAAQISVGELKTILGQGKERWAQLADIELDQL 168
Query: 329 ---------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 169 ETIEKVGIRAKEQMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLERAVEKFDPTKGY 228
Query: 380 RFAN-------TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLS 432
RF+ G+ IS Q +++R V ++ LN +R + + E G+ ++
Sbjct: 229 RFSTYAYWWIRQGI-TRAISTQSRIIRLPV-HITEKLNKIKRA--QRKLSQEKGRKATIE 284
Query: 433 EVGNIFGLSKERVRQL 448
E+ +S E++R++
Sbjct: 285 EMSKELDMSAEQIREV 300
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 59/96 (61%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T + P+ S+ + +R+ ++ LL L +E+ +++LR+G
Sbjct: 307 SVSLEVKVGKEKDTELVDLLETECQSPEESLISESLRKDLQVLLEDLTEREQDVIKLRYG 366
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
EDG SL+++G + LS+ERVRQ+E++AL +L+Q
Sbjct: 367 FEDGTCYSLADIGRVLELSRERVRQIEAKALQKLRQ 402
>gi|428308709|ref|YP_007119686.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
gi|428250321|gb|AFZ16280.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Microcoleus sp. PCC 7113]
Length = 327
Score = 88.2 bits (217), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 71/129 (55%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E Q+Q ++ L K+ L + REPT EW +
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIVYGKQVQQMMLLMDAKAALAEKLQREPTTKEWTMHVKH 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
L + G ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 DEATLNKIVSQGTWAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTKGYKFST 146
Score = 61.6 bits (148), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+RQ + +LL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL +L+
Sbjct: 256 LRQDLDDLLAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERVRQLEHQALAQLR 315
Query: 458 Q 458
+
Sbjct: 316 R 316
>gi|56752254|ref|YP_172955.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 6301]
gi|81300658|ref|YP_400866.1| RNA polymerase sigma factor SigC [Synechococcus elongatus PCC 7942]
gi|56687213|dbj|BAD80435.1| group2 RNA polymerase sigma factor RpoD5 [Synechococcus elongatus
PCC 6301]
gi|81169539|gb|ABB57879.1| group2 RNA polymerase sigma factor SigC [Synechococcus elongatus
PCC 7942]
Length = 398
Score = 87.8 bits (216), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 69/247 (27%), Positives = 115/247 (46%), Gaps = 58/247 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEE----------FELIAQ-----------IQDLIRLEKEK 292
D +RL+L +LL DEE +L+A ++D + L++ +
Sbjct: 41 TDLIRLYLQDIGRVRLLGRDEEVSEARWVQRYMQLLAVRNCVAVEEGGVLKDYVDLQEGR 100
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELH----------------------SGNSSR 330
+L +Q G P+ WAK + S +L+ L G ++
Sbjct: 101 DRLTAQLGHRPSFEAWAKIVDCSLTELRQALQLGLHRWAEVCQLDLEELKQVCKEGQRAK 160
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN------- 383
+ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 161 DHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 220
Query: 384 TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
G+ I+ Q + +R HV L + +R I + + G+ +L E+ ++
Sbjct: 221 QGI-TRAIATQSRTIRLPVHVTEKLNRIKKAQRKIAQTK-----GRTANLEEIAQELEMT 274
Query: 442 KERVRQL 448
++VR++
Sbjct: 275 PDQVREV 281
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/76 (40%), Positives = 54/76 (71%), Gaps = 4/76 (5%)
Query: 386 VEIPDISVQKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D + +++L ++ + N LL LN +ER ++R+RFG+ DG+ SL+E+G + LS
Sbjct: 307 LETTDFTPEERLTQESLSNDLQRLLLELNHRERDVIRMRFGLRDGQIYSLAEIGQVLDLS 366
Query: 442 KERVRQLESRALYRLK 457
+ERVRQ+E++AL +L+
Sbjct: 367 RERVRQIEAKALQKLR 382
>gi|427729632|ref|YP_007075869.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427365551|gb|AFY48272.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 388
Score = 87.8 bits (216), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 43/114 (37%), Positives = 73/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ + L+ + G++PT + A ++ + L++ L+ G
Sbjct: 90 LLKPDEEVELAKRVRFLEDVKDLQEALELELGQQPTKAQIADKFEITEKQLENRLYQGRV 149
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 150 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 203
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 306 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 365
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 366 IQSKAMRKLRRPHIAKRLKGW 386
>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 = 87.8 bits (216), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 58/203 (28%), Positives = 96/203 (47%), Gaps = 49/203 (24%)
Query: 230 VTNHETYNSRKASVKKKLSEGFDR---NDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+ ET +RK S ++ + D +R++L +LL A+EE EL +I DL+
Sbjct: 32 IAETETKKTRKISASRRRDPSKKKPYTEDSIRVYLQEIGRIRLLRAEEEIELARKIADLL 91
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAI-----------GLSCRD----------------- 318
+LE+ + L + +EPT +W K I S +D
Sbjct: 92 QLERIREALWEELDQEPTDEQWGKRIFQWENIEQMLRAQSAKDKDPKWSEVTTMLQQADI 151
Query: 319 ------------------LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
K L+ G +++K++++NLRLVV +AK+Y RG+S DL+Q
Sbjct: 152 ISDLEKTWKLESKAYLPKFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQ 211
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EGS+GL+++ EKF + G +F+
Sbjct: 212 EGSLGLIRAAEKFDHEKGYKFST 234
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLR 403
>gi|78780107|ref|YP_398219.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9312]
gi|78713606|gb|ABB50783.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9312]
Length = 344
Score = 87.8 bits (216), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 81/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E L Q+Q+ +++E+ + ++ G +P++ E + + L
Sbjct: 35 DLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTGDKPSIEELSSKLNL 94
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +K L +G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 95 SIPIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 154
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 155 PARGYKFST 163
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 96/223 (43%), Gaps = 46/223 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 146 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 205
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 206 QEMSRTPTVSELAKYVELPEEDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 254
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 255 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 290
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 291 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRR 333
>gi|428774876|ref|YP_007166663.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothece sp. PCC
7418]
gi|428689155|gb|AFZ42449.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothece sp. PCC
7418]
Length = 328
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 82/129 (63%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E L Q+Q +++L ++K +L+ + GRE T EW + G+
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIILGKQVQKMMKLIEQKEELEEELGREATDEEWTQKAGI 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +L+ + GN ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 SQEELQKAMREGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 68.6 bits (166), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 53/78 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ MRQ + ++L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PETYLTQESMRQDIDSMLSELTPQQREVLSLRFGLEDGNELSLAKVGKKLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ G Y
Sbjct: 307 EHQALAKLRRRRAGVQEY 324
>gi|119509984|ref|ZP_01629125.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119512944|ref|ZP_01632006.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119462397|gb|EAW43372.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
gi|119465308|gb|EAW46204.1| group 2 sigma 70-type sigma factor F [Nodularia spumigena CCY9414]
Length = 389
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 43/114 (37%), Positives = 74/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ L+ + G+ T ++ A + ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVREVQAALELELGQPTTKVQVAGQLEMTEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 204
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 307 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 366
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 367 IQSKAMRKLRRPHIAKRLKGW 387
>gi|62701715|gb|AAX92788.1| Sigma-70 region 3, putative [Oryza sativa Japonica Group]
Length = 368
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 45/119 (37%), Positives = 71/119 (59%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KKK S+G LW R+LLTA EE E IQDL++LE +++L G
Sbjct: 236 SSKKKRSKGASSGTNPLGSLWKMTGRRLLTAKEEVEFSEGIQDLLKLEAIQAELAEYNGG 295
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+PT +WA A G+ R L+ L G + +++ +N+RLV+ +A++++G G+ L+DL+Q
Sbjct: 296 QPTFAQWATAAGVDERTLRKRLDHGIYCKNRMVTSNVRLVISIAREFEGPGMELYDLIQ 354
>gi|309790481|ref|ZP_07685041.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG-6]
gi|308227468|gb|EFO81136.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG6]
Length = 346
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 50/115 (43%), Positives = 74/115 (64%), Gaps = 13/115 (11%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA+EE EL +I+ R ++ + +L ++ + G R+L+ E+ GN
Sbjct: 62 LLTANEEVELSERIE---RGDEAEERLATE----------DQLSGTQRRNLEHEVERGND 108
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+R LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++VEKF + G RF+
Sbjct: 109 ARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKGNRFST 163
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 44/62 (70%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
QL+RQ + L LN +ER I+ LR+G+ DG+ ++L EVG G+++ER RQ+E+ AL R
Sbjct: 272 QLLRQDLCAALDHLNERERRIIDLRYGLLDGRRRTLEEVGRTLGMTRERARQIEAEALRR 331
Query: 456 LK 457
L+
Sbjct: 332 LR 333
>gi|158335266|ref|YP_001516438.1| RNA polymerase sigma factor SigC [Acaryochloris marina MBIC11017]
gi|158305507|gb|ABW27124.1| RNA polymerase sigma-70 factor [Acaryochloris marina MBIC11017]
Length = 423
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 65/216 (30%), Positives = 100/216 (46%), Gaps = 38/216 (17%)
Query: 269 LLTADEEF-ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL EEF E I + RL + +L + G P+ WAK + DLK L G
Sbjct: 101 LLETREEFLESHPVIAEYARLTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGK 160
Query: 328 SS----------------------REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
++ +E +I ANLRLVV VAK+YQ RG+ L DL+QEG++G
Sbjct: 161 TAWAEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLG 220
Query: 366 LMKSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCI 416
L ++VEKF P G RF+ G+ I+ Q + +R H+ L + +R
Sbjct: 221 LERAVEKFDPTKGYRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQR-- 277
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
+ G+ S+ ++ ++ E++R+L R
Sbjct: 278 ---KLSQSKGRTASIEDIAQEMDMTPEQIRELLVRV 310
Score = 72.0 bits (175), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 49/151 (32%), Positives = 79/151 (52%), Gaps = 29/151 (19%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQEGSMG--LMKSVEKFKPQAGCRF 381
+RL VH+ + Q +GR S+ D+ QE M ++ + P++
Sbjct: 258 TIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLE 317
Query: 382 ANTG----------VEIPDISVQKQLMR----QHVRNLLTLLNPKERCIVRLRFGIEDGK 427
G +E DIS ++ +MR Q ++ LL L P+ER ++ +RFG+ DGK
Sbjct: 318 IKVGKDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLTPRERDVITMRFGLNDGK 377
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
SL+++G LS+ERVRQ+ES+AL +L+Q
Sbjct: 378 THSLAQIGKSLDLSRERVRQIESKALQKLRQ 408
>gi|148242803|ref|YP_001227960.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147851113|emb|CAK28607.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 309
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 74/130 (56%), Gaps = 18/130 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ TL+E +
Sbjct: 17 NDPVSWYLSSIGRVPLLTPAEEIELGNQVQTMM-----------------TLVEQGEEAT 59
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R+ K + G S+E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 60 YTARE-KKLIRVGRRSKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 118
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 119 DPTRGYKFST 128
Score = 47.0 bits (110), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 47/71 (66%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E P +V++++ + + L+ L +E+ ++ +RFG+ + +L+E+G + +S+ERVR
Sbjct: 229 EEPLDAVERRMHHEQLGRWLSYLTAQEKQVLEMRFGLGGEQRHTLAEIGRLMEVSRERVR 288
Query: 447 QLESRALYRLK 457
Q+E +AL +L+
Sbjct: 289 QVELKALRKLR 299
>gi|123969371|ref|YP_001010229.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. AS9601]
gi|123199481|gb|ABM71122.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. AS9601]
Length = 344
Score = 87.4 bits (215), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 80/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E L Q+Q+ + +E+ + ++ G +P++ E + + L
Sbjct: 35 DLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMEVERIELEIIELTGEKPSIDELSAKLNL 94
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +K L +G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 95 TTSTIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 154
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 155 PARGYKFST 163
Score = 52.0 bits (123), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 57/223 (25%), Positives = 96/223 (43%), Gaps = 46/223 (20%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 146 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 205
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 206 QEMSRTPTVSELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 254
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 255 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 290
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 291 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRR 333
>gi|434393099|ref|YP_007128046.1| RNA polymerase, sigma subunit, RpsC/SigC [Gloeocapsa sp. PCC 7428]
gi|428264940|gb|AFZ30886.1| RNA polymerase, sigma subunit, RpsC/SigC [Gloeocapsa sp. PCC 7428]
Length = 413
Score = 87.4 bits (215), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 59/173 (34%), Positives = 85/173 (49%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL DEE ++Q IRL + ++K
Sbjct: 56 TDLVRLYLQEIGRVHLLGRDEEVSEAQKVQRYIRLVELRAKAAKNGDEIMVPYEQLMAVQ 115
Query: 295 --LQSQFGREPTL--------IE--------------WAKAIGLSCRDLKSELHSGNSSR 330
L S+ G P+L IE WA+ GL+ ++L+ GN ++
Sbjct: 116 ERLTSELGHRPSLERWATSAGIEVAELKPLLIKGKRRWAEITGLTVQELEQIQSEGNRAK 175
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P G RF+
Sbjct: 176 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTKGYRFST 228
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E IS ++ LMR+ +++LL L +ER ++ +RFG+ DG SL+E+G LS
Sbjct: 322 LETDSISPEEVLMREALQRDLQHLLADLTDRERDVILMRFGLGDGHSYSLAEIGRALDLS 381
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 382 RERVRQIESKALQKLRQ 398
>gi|123967051|ref|YP_001012132.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9515]
gi|123201417|gb|ABM73025.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9515]
Length = 333
Score = 87.4 bits (215), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 80/129 (62%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL+ ++E L Q+Q+ +++E+ + ++ +P++ E A + L
Sbjct: 24 DLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTDNKPSVEELAAKLNL 83
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S +K L +G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF
Sbjct: 84 SSSQIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFD 143
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 144 PARGYKFST 152
Score = 53.1 bits (126), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 59/228 (25%), Positives = 99/228 (43%), Gaps = 49/228 (21%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 135 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 194
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 195 QEMSRTPTISELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 243
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 244 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 279
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES---RALYRLKQSL 460
++R+R+G++ +P SL+ +G + G+S++RVR LE R L RL +++
Sbjct: 280 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSENV 327
>gi|428205323|ref|YP_007089676.1| RNA polymerase, sigma subunit, RpsC/SigC [Chroococcidiopsis
thermalis PCC 7203]
gi|428007244|gb|AFY85807.1| RNA polymerase, sigma subunit, RpsC/SigC [Chroococcidiopsis
thermalis PCC 7203]
Length = 416
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 48/124 (38%), Positives = 69/124 (55%), Gaps = 22/124 (17%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL------------------ 323
I+ I L + + +L S+ G P+L WA + G+S +LK L
Sbjct: 108 IKTYITLIEAQERLTSELGHRPSLERWAASAGISVMELKPALAVGKRRWAEIAKITVEEL 167
Query: 324 ----HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 168 EQIQNDGIHAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGY 227
Query: 380 RFAN 383
RF+
Sbjct: 228 RFST 231
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 49/72 (68%), Gaps = 4/72 (5%)
Query: 391 ISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
IS ++ LMR+ ++ LL L +ER ++ +RFG+ DG SL+E+G LS+ERVR
Sbjct: 330 ISPEELLMREALHRDLQQLLADLTDRERDVILMRFGLGDGHCYSLAEIGRALDLSRERVR 389
Query: 447 QLESRALYRLKQ 458
Q+ES+AL +L+Q
Sbjct: 390 QIESKALQKLRQ 401
>gi|434405397|ref|YP_007148282.1| RNA polymerase, sigma subunit, RpsC/SigC [Cylindrospermum stagnale
PCC 7417]
gi|428259652|gb|AFZ25602.1| RNA polymerase, sigma subunit, RpsC/SigC [Cylindrospermum stagnale
PCC 7417]
Length = 412
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 47/120 (39%), Positives = 66/120 (55%), Gaps = 22/120 (18%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------ 327
+RL + + +L S+ G P+L WA G+ DLK L +G
Sbjct: 108 LRLIEVQERLSSELGHRPSLERWATTAGIELPDLKPTLANGKRRWAETAKLTVEELDQVQ 167
Query: 328 ----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 168 SQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 227
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/96 (37%), Positives = 57/96 (59%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ + NLL L +ER ++ +RFG
Sbjct: 302 SVSLETKVGKDKDTELGELLETDCVTPEEMLMRESLQRDLHNLLDDLTSRERDVILMRFG 361
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 362 LSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 397
>gi|33862185|ref|NP_893746.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
gi|33634403|emb|CAE20088.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
Length = 333
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 43/115 (37%), Positives = 75/115 (65%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ ++E L Q+Q+ +++E+ + ++ +P+ E A+ + LS +K L +G
Sbjct: 38 LLSHEQEITLGRQVQEYMQVERAEIEIMELTDNKPSPEELAEKLNLSTSQIKKRLRAGQR 97
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F+
Sbjct: 98 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFST 152
Score = 54.7 bits (130), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 60/228 (26%), Positives = 99/228 (43%), Gaps = 49/228 (21%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQDLI-RLEKEKSKLQ 296
L G ++ DP R + W + TR + L I +++ +L+K + +L
Sbjct: 135 LVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELS 194
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ R PT+ E AK + L D+K + V K G L
Sbjct: 195 QEMSRTPTISELAKYVELPEDDVKDLMCKAGQP-----------VSLETKVGDGEDTVLL 243
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC- 415
DLL AG G ++PD ++ MR + +LL L P +C
Sbjct: 244 DLL-----------------AG------GEDLPDEQIEMDCMRGDLHSLLHQL-PDLQCR 279
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES---RALYRLKQSL 460
++R+R+G++ +P SL+ +G + G+S++RVR LE R L RL +S+
Sbjct: 280 VLRMRYGMDGDEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSESV 327
>gi|78185801|ref|YP_378235.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CC9902]
gi|78170095|gb|ABB27192.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. CC9902]
Length = 377
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 72/241 (29%), Positives = 115/241 (47%), Gaps = 51/241 (21%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ--------------------DLIRLEKEKSK 294
D LRL+L LLT++EE L +Q +L RLE+ + +
Sbjct: 21 DLLRLYLQDIGRVDLLTSEEEVTLARLVQRRETLLKQQRELSDTNQAIGELHRLEELQRR 80
Query: 295 LQSQFGREPTLIEWAKAIGLS----------------------CRDLKSELHSGNSSREK 332
+ PT EWA+A L+ ++LK L +G +++
Sbjct: 81 EANHHSHWPTKQEWARAAALTLQELQNRIDAGYEAWAEKAAIDAKELKLSLRNGRRAKDH 140
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV------ 386
+I ANLRLVV VAK+YQ RG+ + DL+QEG++GL ++VEKF P G RF+
Sbjct: 141 MIQANLRLVVAVAKKYQQRGMEILDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQG 200
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
I+ Q + +R V ++ LN +R V+ +G+ S++++ G+S++ VR
Sbjct: 201 MTRAIATQSRTIRLPV-HVTEKLNRIKR--VQQEIASNEGRIASIADLARELGISEDTVR 257
Query: 447 Q 447
Q
Sbjct: 258 Q 258
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 48/74 (64%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G P+ ++ + + LL L P+E ++R RFG+ED P++L+++G LS+ER
Sbjct: 288 GKATPEETLTHDELHNDLEGLLDELTPREASVLRRRFGLEDDTPQTLAQIGEELKLSRER 347
Query: 445 VRQLESRALYRLKQ 458
VRQ+E+RAL +L+Q
Sbjct: 348 VRQIETRALLKLRQ 361
>gi|113475621|ref|YP_721682.1| RNA polymerase subunit sigma 28 [Trichodesmium erythraeum IMS101]
gi|110166669|gb|ABG51209.1| RNA polymerase, sigma 28 subunit [Trichodesmium erythraeum IMS101]
Length = 410
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 38/78 (48%), Positives = 56/78 (71%)
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
+ WAK GL+ ++L+ G +R ++I+ NLRLVV +AK+YQ RG+ L DL+QEG++G
Sbjct: 148 LRWAKLTGLNVKELEQIQTEGIEARHQMISTNLRLVVSIAKKYQNRGVELLDLIQEGTLG 207
Query: 366 LMKSVEKFKPQAGCRFAN 383
L ++VEKF PQ G RF+
Sbjct: 208 LERAVEKFDPQRGYRFST 225
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 53/77 (68%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMR----QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D S ++ L+R Q ++ LL L +ER ++ +R+G+EDG+ SLSE+ + LS
Sbjct: 319 LETKDASPEEMLIRESLVQALKELLLDLTQRERYVITMRYGLEDGRACSLSEIASALKLS 378
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E +AL++L+Q
Sbjct: 379 RERVRQIEVKALHKLRQ 395
>gi|113953359|ref|YP_732042.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp.
CC9311]
gi|113880710|gb|ABI45668.1| RNA polymerase sigma-70 factor family protein [Synechococcus sp.
CC9311]
Length = 376
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 74/248 (29%), Positives = 116/248 (46%), Gaps = 53/248 (21%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ----------------- 296
ND LRL+L LLTA++E L +Q RL++E+ +
Sbjct: 19 NDLLRLYLQDIGRVDLLTAEDEVVLSRLVQQYERLKREERQFAEDHPAIERLLCLEELQL 78
Query: 297 ---SQFGREPTLIEWAKA----------------------IGLSCRDLKSELHSGNSSRE 331
+ PT EWA+A I R+L+ L G +R+
Sbjct: 79 REANHLSHWPTRQEWARAAEMPLQELNKGLTQGYETWANLISTDSRELQLRLRRGRKARD 138
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------T 384
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF G RF+
Sbjct: 139 RMIQANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERAVEKFDSTRGFRFSTYSYWWIRQ 198
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G+ I+ Q + +R V ++ LN +R V+ +G+ S++++ +S++
Sbjct: 199 GI-TRAIATQSRTIRLPV-HITEKLNRIKR--VQQEIASNEGRTASMTDLARELSVSEDT 254
Query: 445 VRQLESRA 452
VRQ +R
Sbjct: 255 VRQTLARV 262
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ + + + +LL L P+E ++R RFG+ED P++L+++G LS+ERVRQ+
Sbjct: 291 PEQTLTRDSLHDDLEHLLNELTPREATVIRCRFGLEDDTPRTLAQIGEDMNLSRERVRQI 350
Query: 449 ESRALYRLKQ 458
E+RAL +L+Q
Sbjct: 351 ETRALLKLRQ 360
>gi|427727607|ref|YP_007073844.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
gi|427363526|gb|AFY46247.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Nostoc sp. PCC 7524]
Length = 416
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 80/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q +RL + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLRLRTVLAGAAKQGDAVATPYLHLIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WA G+ DLK L G ++
Sbjct: 119 ERLASELGHRPSLERWANTAGVQVSDLKPILSEGKRRWAEIAKMTVEELEQIQSNGLQAK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.5 bits (158), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 60/195 (30%), Positives = 94/195 (48%), Gaps = 37/195 (18%)
Query: 266 TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T+ L I + L +++K + K+ + GR PTL DL EL
Sbjct: 242 TRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL-----------EDLAIELE 290
Query: 325 SGNSS-REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
S RE L+ R +SL E +G K E G
Sbjct: 291 MTPSQVREVLLRVP-------------RSVSL-----ETKVGKDKDTE-----LGELLET 327
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
GV P+ + ++ +++ +++LL L +ER ++ +RFG+ DG P SL+E+G LS+E
Sbjct: 328 DGV-TPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRE 386
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+ES+AL +L+Q
Sbjct: 387 RVRQIESKALQKLRQ 401
>gi|357144851|ref|XP_003573435.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 531
Score = 87.0 bits (214), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 81/126 (64%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + +L +I+D I L++++SKL+ + G EP+ + A+++ +S
Sbjct: 217 RIYLRGSVSKELLTHKQVVQLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTP 276
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S + +RE L +NLRLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 277 ELRSRMRDSFLAREVLTMSNLRLVISIAQKYDKLGVELPDLIQGGLIGLLRGIEKFDASR 336
Query: 378 GCRFAN 383
G R +
Sbjct: 337 GFRIST 342
>gi|383791048|ref|YP_005475622.1| sigma-70 family RNA polymerase sigma factor [Spirochaeta africana
DSM 8902]
gi|383107582|gb|AFG37915.1| RNA polymerase sigma factor, sigma-70 family [Spirochaeta africana
DSM 8902]
Length = 314
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 63/201 (31%), Positives = 108/201 (53%), Gaps = 18/201 (8%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFEL---IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAK 310
+D L L+L KLLT ++E E+ I +++D LE+ S+ Q G ++ +
Sbjct: 12 SDSLSLYLKQIAKYKLLTVEQELEIGRRIVELRD--ELERVTSEYQVHGGDAHDYMQRSS 69
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ KS ++INANLRLVV +AK+YQ RG++L DL+ EG++GL+++V
Sbjct: 70 TVERELREQKS----------RMINANLRLVVSIAKKYQHRGLNLLDLIDEGNIGLIEAV 119
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERC-IVRLRFGIEDGK 427
E+F GCRF+ G ++ K L + +R + +LN ++C V E G+
Sbjct: 120 ERFDYTRGCRFSTYGTWWIRQAIIKSLADKGRIIRIPIHMLNTIKKCFFVAKHLTQELGR 179
Query: 428 PKSLSEVGNIFGLSKERVRQL 448
+ E+ L +E+V+++
Sbjct: 180 DPNNREISEYMDLPEEKVKEI 200
Score = 48.9 bits (115), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 40/58 (68%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
++++L L +E+ I+ LR+G+E P +L E G G+++ERVRQ++ +A+ +L+ +
Sbjct: 247 LKHVLHELTEREKRIITLRYGLEGQGPYTLEETGRFLGITRERVRQIQEKAIQKLRSA 304
>gi|282900303|ref|ZP_06308254.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii
CS-505]
gi|281194808|gb|EFA69754.1| Sigma 28 (Flagella/Sporulation) [Cylindrospermopsis raciborskii
CS-505]
Length = 399
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 71/114 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ Q G + E A L+ + L+S L+ G
Sbjct: 101 LLKPDEEVELARRVRFLEEVKDLQAALEEQLGHSVSKSEVASKFDLNEKQLESRLYQGRV 160
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 161 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 214
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 317 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 376
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 377 IQSKAMRKLRRPHIAKRLKGW 397
>gi|359462082|ref|ZP_09250645.1| RNA polymerase sigma factor SigC [Acaryochloris sp. CCMEE 5410]
Length = 423
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 64/216 (29%), Positives = 100/216 (46%), Gaps = 38/216 (17%)
Query: 269 LLTADEEF-ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL EEF + I + RL + +L + G P+ WAK + DLK L G
Sbjct: 101 LLETREEFLDSHPAIAEYARLTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGK 160
Query: 328 SS----------------------REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
++ +E +I ANLRLVV VAK+YQ RG+ L DL+QEG++G
Sbjct: 161 TAWAEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLG 220
Query: 366 LMKSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCI 416
L ++VEKF P G RF+ G+ I+ Q + +R H+ L + +R
Sbjct: 221 LERAVEKFDPTKGYRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQR-- 277
Query: 417 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
+ G+ S+ ++ ++ E++R+L R
Sbjct: 278 ---KLSQSKGRTASIEDIAQEMDMTPEQIRELLVRV 310
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 50/151 (33%), Positives = 80/151 (52%), Gaps = 29/151 (19%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQEGSMG--LMKSVEKFKPQAGCRF 381
+RL VH+ + Q +GR S+ D+ QE M ++ + P++
Sbjct: 258 TIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLE 317
Query: 382 ANTG----------VEIPDISVQKQLMR---QH-VRNLLTLLNPKERCIVRLRFGIEDGK 427
G +E DIS ++ +MR QH ++ LL L P+ER ++ +RFG+ DGK
Sbjct: 318 IKVGKDKDTELGDLLETDDISPEELIMRESLQHELKQLLADLTPRERDVITMRFGLNDGK 377
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
SL+++G LS+ERVRQ+ES+AL +L+Q
Sbjct: 378 THSLAQIGKSLDLSRERVRQIESKALQKLRQ 408
>gi|427722866|ref|YP_007070143.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7376]
gi|427354586|gb|AFY37309.1| RNA polymerase, sigma subunit, RpsC/SigC [Leptolyngbya sp. PCC
7376]
Length = 396
Score = 86.7 bits (213), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 51/150 (34%), Positives = 85/150 (56%), Gaps = 15/150 (10%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + L +++++ L +G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 136 WAACVDLDIKEIEAVLKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 195
Query: 368 KSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVR 418
++V+KF P G RF+ G+ I+ Q + +R HV L + +R I +
Sbjct: 196 RAVDKFDPTKGYRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQ 254
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ G SL +V + ++ +VR++
Sbjct: 255 TQ-----GCTPSLEDVAKVLNMTAAQVREV 279
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 56/77 (72%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D S ++ L+R+ +RNLL L +E+ +++LR+G++DGK SL+E+G + LS
Sbjct: 305 LETKDASPEENLVRESLQRDLRNLLAELTDREQEVIQLRYGLDDGKTHSLAEIGRVLELS 364
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 365 RERVRQIEAKALQKLRQ 381
>gi|434404640|ref|YP_007147525.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
gi|428258895|gb|AFZ24845.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cylindrospermum stagnale PCC 7417]
Length = 377
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 42/114 (36%), Positives = 73/114 (64%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ + L ++ G+ + ++ A + ++ + L+S L+ G
Sbjct: 79 LLKPDEEVELARRVRFLEEIKDLQESLSTELGQPASKLQVANQLEMTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 192
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 295 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 354
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 355 IQSKAMRKLRRPHIAKRLKGW 375
>gi|4218586|emb|CAA10725.1| chloroplast sigma factor [Triticum aestivum]
Length = 461
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 43/126 (34%), Positives = 80/126 (63%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL+ + G EP+ + A+++ +S
Sbjct: 147 RIYLRGTVSKELLTQKQVVHLSKKIKDGIWLQQQRSKLKEKLGNEPSYKQMAQSLRISTP 206
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S + +RE L +N+RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 207 ELRSRMRESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASR 266
Query: 378 GCRFAN 383
G R +
Sbjct: 267 GFRIST 272
>gi|449017553|dbj|BAM80955.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 591
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 46/132 (34%), Positives = 80/132 (60%), Gaps = 7/132 (5%)
Query: 259 LFLWGPETRK--LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL-S 315
LF + E R+ L+ +EE L ++Q L R+E+++ L+ R PT EWA+A+ + S
Sbjct: 270 LFDYLDEIRRYQLIEHEEEVALAREVQHLNRIEEKRQDLEKMLHRPPTSQEWARALNMKS 329
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR----GISLHDLLQEGSMGLMKSVE 371
+L+ L G+ +R +L+ +NLRLV + ++ R G+++ DL+QEGS+GL+++ E
Sbjct: 330 AAELQEALARGHQARNRLVTSNLRLVNAIVNRFSRRAEAIGVTMSDLMQEGSIGLIRAAE 389
Query: 372 KFKPQAGCRFAN 383
+F G RF+
Sbjct: 390 RFDGSRGYRFST 401
Score = 57.4 bits (137), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/58 (46%), Positives = 43/58 (74%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+R L ++LN +E ++RLRFG++D +PK+L +V I +SKERVRQ+ AL +L++S
Sbjct: 520 LRLLRSVLNDREVFVLRLRFGLDDDEPKTLQQVAAILNVSKERVRQISFAALAKLRKS 577
>gi|440682434|ref|YP_007157229.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena cylindrica PCC
7122]
gi|428679553|gb|AFZ58319.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena cylindrica PCC
7122]
Length = 416
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 69/129 (53%), Gaps = 25/129 (19%)
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN--------- 327
E+I Q LI +++ +L S+ G P+L WA G+ +LK L G
Sbjct: 106 EVIVPYQRLIEVQE---RLSSELGHRPSLERWATTAGIELSNLKPTLSEGKRRWAEIAEL 162
Query: 328 -------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF
Sbjct: 163 TVLELEKIQSQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFD 222
Query: 375 PQAGCRFAN 383
P G RF+
Sbjct: 223 PTKGYRFST 231
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 56/96 (58%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ + NLL L +ER ++ +RFG
Sbjct: 306 SVSLETKVGKDKDTELGELLETDSVTPEEMLMRESLQKDLHNLLDDLTSRERDVILMRFG 365
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 366 LSDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|434389143|ref|YP_007099754.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
gi|428020133|gb|AFY96227.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Chamaesiphon minutus PCC 6605]
Length = 422
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 55/174 (31%), Positives = 84/174 (48%), Gaps = 27/174 (15%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------------------SRE 331
+L +Q G P+ WA G++ +LK L +G ++E
Sbjct: 126 RLTAQLGHRPSPERWASTAGIALAELKPRLAAGKQRWAELAQMTVAEIDALQLAGTRAKE 185
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDI 391
+I ANLRLVV VAK+YQ RG+ L DL+QEG+MGL ++V+KF P G RF+
Sbjct: 186 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTMGLERAVDKFDPTKGYRFSTYAYWWIRQ 245
Query: 392 SVQKQLMRQHVRNLLTLLNPKERC----IVRLRFGIEDGKPKSLSEVGNIFGLS 441
+ + + Q RN+ ++ E+ V+ IE G+P L EV ++
Sbjct: 246 GITRAIATQS-RNIRLPVHITEKLNKIKKVQRELSIETGRPPRLEEVAKALDMT 298
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 60/226 (26%), Positives = 102/226 (45%), Gaps = 52/226 (23%)
Query: 247 LSEGFDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQ 296
L D+ DP + + W + TR + T L I + L +++K + +L
Sbjct: 220 LERAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRNIRLPVHITEKLNKIKKVQRELS 279
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ GR P L E AKA+ ++ L+ L + ++ L V V K R L
Sbjct: 280 IETGRPPRLEEVAKALDMTLVQLQEVLMR--------VPRSVSLDVKVGKD---RDTELG 328
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN----LLTLLNPK 412
DLL E +++ ++ +MR+ ++ LL L +
Sbjct: 329 DLL---------------------------EADEVTPEQMMMRESLQGELVQLLADLTDR 361
Query: 413 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
ER ++ LRFG+ + SL+++G + LS+ERVRQ+ES+AL +L+Q
Sbjct: 362 EREVICLRFGLGYNQAHSLADIGRVLELSRERVRQIESKALQKLRQ 407
>gi|156740438|ref|YP_001430567.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii
DSM 13941]
gi|156231766|gb|ABU56549.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus
castenholzii DSM 13941]
Length = 405
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 55/151 (36%), Positives = 84/151 (55%), Gaps = 14/151 (9%)
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
HE + +G +DP+R++L LLTA EE L Q++ R E+
Sbjct: 86 HEQDDDSLDHDLDADVDGIGVDDPVRVYLREIGRVNLLTAQEEIMLAQQVE---RGEQAN 142
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+LQ+ + T +E + L + G ++RE+LI ANLRLVV +AK+Y GRG
Sbjct: 143 ERLQNG---DYTPVERLQ--------LHRWVQEGQAARERLIQANLRLVVSIAKKYLGRG 191
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+SL DL+QEG++GLM++ EKF + G +F+
Sbjct: 192 MSLLDLIQEGNIGLMRATEKFDYRKGYKFST 222
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 51/80 (63%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P S ++R+ + + L L +ER I++LR+G+ DG ++L EVG FG+++ER+RQ+
Sbjct: 324 PMESASSHILREQIDSALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQI 383
Query: 449 ESRALYRLKQSLGGKASYGY 468
E+R L +L+ G+ GY
Sbjct: 384 EARVLRKLRHPHYGRGLRGY 403
>gi|172036788|ref|YP_001803289.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC
51142]
gi|354554599|ref|ZP_08973903.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
gi|171698242|gb|ACB51223.1| group 2 sigma-70 RNA polymerase sigma factor C [Cyanothece sp. ATCC
51142]
gi|353553408|gb|EHC22800.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
ATCC 51472]
Length = 420
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 53/151 (35%), Positives = 86/151 (56%), Gaps = 15/151 (9%)
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+WA + ++L+ SG S++++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 159 QWATLANIDIQELEEIQKSGIRSKDEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGL 218
Query: 367 MKSVEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIV 417
K+VEKF P G RF+ G+ I+ Q +++R HV L + +R I
Sbjct: 219 EKAVEKFDPIKGYRFSTYAYWWIRQGI-TRAIATQSRIIRLPVHVTEKLNKIKQVQRQIS 277
Query: 418 RLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ + G+ +L E+G ++ +VR++
Sbjct: 278 QAK-----GRNATLEEIGKELNMTPTQVREV 303
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 46/150 (30%), Positives = 78/150 (52%), Gaps = 29/150 (19%)
Query: 338 LRLVVHVAK-------------QYQGRGISLHDLLQEGSMGLMKSVEKFK--PQAGCRFA 382
+RL VHV + Q +GR +L ++ +E +M + E F P++
Sbjct: 256 IRLPVHVTEKLNKIKQVQRQISQAKGRNATLEEIGKELNMTPTQVREVFMKIPRSVSLEI 315
Query: 383 NTG----------VEIPDISVQKQL----MRQHVRNLLTLLNPKERCIVRLRFGIEDGKP 428
G +E DIS ++ L +R+ + LL L +E+ +++LR+G EDG
Sbjct: 316 KVGKEKDTELVDLLESEDISPEENLAIESLRRDIGILLEDLTEREQEVIKLRYGFEDGVS 375
Query: 429 KSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
SL+++G LS+ERVRQ+E++AL +L+Q
Sbjct: 376 YSLADIGRTLDLSRERVRQIEAKALQKLRQ 405
>gi|307152083|ref|YP_003887467.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC
7822]
gi|306982311|gb|ADN14192.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7822]
Length = 418
Score = 86.3 bits (212), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 60/202 (29%), Positives = 102/202 (50%), Gaps = 37/202 (18%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS------------- 328
I++ + L +++ +L SQ G P+L A A ++ +LK L+ G
Sbjct: 110 IKNFVSLIEKRDQLTSQLGHRPSLERLADAAEITVFELKKTLYEGKRHWAELANLEVQEL 169
Query: 329 ---------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P G
Sbjct: 170 ERVQKAGIYAKEQMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVDKFDPTKGY 229
Query: 380 RFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
RF+ G+ I+ Q +++R H+ L + +R I +L+ G S
Sbjct: 230 RFSTYAYWWIRQGI-TRAIATQSRIIRLPVHITEKLNKIKKAQRKIAQLK-----GATPS 283
Query: 431 LSEVGNIFGLSKERVRQLESRA 452
+ E+ +S ++R++ R
Sbjct: 284 IEELSQELEMSPPQIREVLMRV 305
Score = 68.2 bits (165), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ + +RQ + NLL L +ER +++LR+G +DGK SL+++G LS+ERVRQ+
Sbjct: 334 PEDNIANEALRQDLHNLLADLTTREREVIQLRYGFKDGKSYSLADIGRTLQLSRERVRQI 393
Query: 449 ESRALYRLKQ 458
E++A+ +L+Q
Sbjct: 394 EAKAIQKLRQ 403
>gi|428214294|ref|YP_007087438.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria acuminata
PCC 6304]
gi|428002675|gb|AFY83518.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria acuminata
PCC 6304]
Length = 418
Score = 86.3 bits (212), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 64/218 (29%), Positives = 103/218 (47%), Gaps = 41/218 (18%)
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------- 327
++Q +RL + +L S G P+L WA G DLK L +G
Sbjct: 109 ELQRYVRLVDTRDRLASLLGHRPSLERWAAEAGEQVSDLKPILAAGKRQWAALASLTVEE 168
Query: 328 ---------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P G
Sbjct: 169 LERTQAEGIGAKEHMIEANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTKG 228
Query: 379 CRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPK 429
RF+ G+ I+ Q + +R H+ L + +R + E G+
Sbjct: 229 YRFSTYAYWWIRQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQR-----KLSQEKGRTA 282
Query: 430 SLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYG 467
S+ +V ++ +VR++ L R+ +S+ + G
Sbjct: 283 SIEDVAKELEMTPAQVREV----LLRVPRSVSLETKVG 316
Score = 68.2 bits (165), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 51/165 (30%), Positives = 83/165 (50%), Gaps = 29/165 (17%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQEGSM--GLMKSVEKFKPQAGCRF 381
+RL VH+ + Q +GR S+ D+ +E M ++ V P++
Sbjct: 253 TIRLPVHITEKLNKIKKAQRKLSQEKGRTASIEDVAKELEMTPAQVREVLLRVPRSVSLE 312
Query: 382 ANTG----------VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGK 427
G +E DIS +++LM++ + +LL L +ER ++ +RFG+ DG
Sbjct: 313 TKVGKEKDTELGDLLETDDISPEEKLMQEALHRELHHLLADLTSRERDVIGMRFGLTDGH 372
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
P SL+E+G LS+ERVRQ+ES+AL +L+Q Y +LL
Sbjct: 373 PYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNRVRDYLELL 417
>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 = 86.3 bits (212), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 78/130 (60%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +R++L LLT+D+E Q+Q +I +++++ +L Q REPT E A +
Sbjct: 6 SDLIRIYLQEIGQFPLLTSDQEITYGRQVQQMIAIQEQQQQLSQQLHREPTTAELANFLN 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + L G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + +EKF
Sbjct: 66 TTQAQVNQILELGQRAKQKMITANLRLVVSIAKKYQRRNLEFLDLVQEGAIGLQRGIEKF 125
Query: 374 KPQAGCRFAN 383
P G + +
Sbjct: 126 DPNRGYKLST 135
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 50/77 (64%), Gaps = 1/77 (1%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
A+ GV P+ + +++RQ + +LL L P +R ++ LRFG+ D + +SL+++ L
Sbjct: 229 LASEGVS-PNENTTHEMLRQDLSDLLASLKPMQREVLILRFGLLDNQEQSLAQISEKLNL 287
Query: 441 SKERVRQLESRALYRLK 457
S+ERVRQ++ +A+ L+
Sbjct: 288 SRERVRQIQQKAMTALR 304
>gi|254416308|ref|ZP_05030062.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
gi|196176990|gb|EDX72000.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coleofasciculus chthonoplastes PCC 7420]
Length = 416
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 47/124 (37%), Positives = 64/124 (51%), Gaps = 22/124 (17%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS------------- 328
I+ + L + +L SQ G P+L WA G+ LK L G
Sbjct: 108 IEHFVHLIETHDRLASQLGHRPSLERWATTAGVDVATLKPSLVKGKQRWAELAELTVKEL 167
Query: 329 ---------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 168 EQVQAEGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 227
Query: 380 RFAN 383
RF+
Sbjct: 228 RFST 231
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 45/151 (29%), Positives = 75/151 (49%), Gaps = 29/151 (19%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQEGSMG-------LMK-------- 368
+RL VH+ + Q QGR ++ D+ +E M LM+
Sbjct: 251 TIRLPVHITEKLNKIKKAQRKISQEQGRTATIEDIAKELEMDAPQVREVLMRVPRSVSLE 310
Query: 369 -SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 427
V K K T P+ + ++ +++ ++ LL L +ER ++ +RFG+ DG
Sbjct: 311 IKVGKEKDTELGDLLETEETSPEDVLMREALQRDLQQLLADLTSRERDVICMRFGLGDGH 370
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
P SL+E+G LS+ERVRQ+E++AL +L+Q
Sbjct: 371 PYSLAEIGRALELSRERVRQIEAKALQKLRQ 401
>gi|414077595|ref|YP_006996913.1| RpoD family RNA polymerase sigma factor SigC [Anabaena sp. 90]
gi|413971011|gb|AFW95100.1| RpoD family RNA polymerase sigma factor SigC [Anabaena sp. 90]
Length = 411
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 46/119 (38%), Positives = 66/119 (55%), Gaps = 22/119 (18%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------- 327
RL + + +L+++ G P+L WA G+S DLK L +G
Sbjct: 108 RLMEVQERLKAELGHRPSLERWATTAGISLPDLKPTLANGKRRWAEIANLTVEELEQVQT 167
Query: 328 ---SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 168 QGLQAKSHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 226
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 51/77 (66%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E I+ ++ LMR+ + +LL L +ER ++ +RFG+ DG SL+E+G LS
Sbjct: 320 LETDTITPEEMLMRESLHKDLHSLLDDLTGRERDVILMRFGLSDGHAYSLAEIGRALDLS 379
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 380 RERVRQIESKALQKLRQ 396
>gi|428300095|ref|YP_007138401.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 6303]
gi|428236639|gb|AFZ02429.1| RNA polymerase, sigma subunit, RpsC/SigC [Calothrix sp. PCC 6303]
Length = 442
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q +RL + +
Sbjct: 85 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLRLRVVLANAAKQGDEIIAPYLRIIEAQ 144
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSEL----------------------HSGNSSR 330
+L S+ G P++ WA G+ +LK L SG S+
Sbjct: 145 ERLASELGHRPSMERWASTAGVDVFELKQILAKGKRRWAEVAKLTVEELEQMQSSGLQSK 204
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 205 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 257
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 54/77 (70%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E ++ ++ LMR+ ++ +LL+ L +ER ++ +RFG+ DG P SL+E+G LS
Sbjct: 351 LETDSVTPEEMLMRESLQRDLHHLLSDLTTRERDVILMRFGLADGHPYSLAEIGRALDLS 410
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 411 RERVRQIESKALQKLRQ 427
>gi|413921194|gb|AFW61126.1| RNA polymerase sigma factor 2 [Zea mays]
Length = 504
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 78/125 (62%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +S
Sbjct: 190 RIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRISAP 249
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N+RLV+ +A +Y G+ L DL+Q G +GL++ +EKF
Sbjct: 250 ELRARMRESFLAREMLTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASR 309
Query: 378 GCRFA 382
G R +
Sbjct: 310 GFRIS 314
Score = 40.8 bits (94), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 43/68 (63%), Gaps = 4/68 (5%)
Query: 394 QKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESR 451
++ +++ V NL+ + LN +ER I+RL GI GK + ++ FGLS+ERVRQ+
Sbjct: 426 EEMYLKEEVNNLINSNLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVRQVGLV 483
Query: 452 ALYRLKQS 459
A+ +LK +
Sbjct: 484 AMEKLKHA 491
>gi|17229184|ref|NP_485732.1| RNA polymerase sigma factor SigC [Nostoc sp. PCC 7120]
gi|20141790|sp|Q03066.2|RPSC_ANASP RecName: Full=RNA polymerase sigma-C factor
gi|17135512|dbj|BAB78058.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
Length = 416
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q ++L + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLKLRIVLANAVKQGDEVATPYLHLIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WA G++ DLK L G S+
Sbjct: 119 ERLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 94/195 (48%), Gaps = 37/195 (18%)
Query: 266 TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T+ L I + L +++K + K+ + GR PTL DL EL
Sbjct: 242 TRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL-----------EDLAIELD 290
Query: 325 -SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ RE L+ R +SL E +G K E G
Sbjct: 291 MTPTQVREVLLRVP-------------RSVSL-----ETKVGKDKDTE-----LGELLET 327
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
GV P+ + ++ +++ +++LL L +ER ++ +RFG+ DG P SL+E+G LS+E
Sbjct: 328 DGV-TPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRE 386
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+ES+AL +L+Q
Sbjct: 387 RVRQIESKALQKLRQ 401
>gi|142114|gb|AAA22047.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
Length = 416
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q ++L + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLKLRIVLANAVKQGDEVATPYLHLIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WA G++ DLK L G S+
Sbjct: 119 ERLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 94/195 (48%), Gaps = 37/195 (18%)
Query: 266 TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T+ L I + L +++K + K+ + GR PTL DL EL
Sbjct: 242 TRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL-----------EDLAIELD 290
Query: 325 -SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ RE L+ R +SL E +G K E G
Sbjct: 291 MTPTQVREVLLRVP-------------RSVSL-----ETKVGKDKDTE-----LGELLET 327
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
GV P+ + ++ +++ +++LL L +ER ++ +RFG+ DG P SL+E+G LS+E
Sbjct: 328 DGV-TPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRE 386
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+ES+AL +L+Q
Sbjct: 387 RVRQIESKALQKLRQ 401
>gi|75907387|ref|YP_321683.1| RNA polymerase sigma factor SigC [Anabaena variabilis ATCC 29413]
gi|75701112|gb|ABA20788.1| RNA polymerase, sigma subunit, RpsC/SigC [Anabaena variabilis ATCC
29413]
Length = 416
Score = 85.9 bits (211), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 57/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q ++L + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLKLRVVLANAAKQGDEVATPYLHLIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P+L WA G++ DLK L G S+
Sbjct: 119 ERLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 59/195 (30%), Positives = 94/195 (48%), Gaps = 37/195 (18%)
Query: 266 TRKLLTADEEFELIAQI-QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T+ L I + L +++K + K+ + GR PTL DL EL
Sbjct: 242 TRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL-----------EDLAIELD 290
Query: 325 -SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ RE L+ R +SL E +G K E G
Sbjct: 291 MTPTQVREVLLRVP-------------RSVSL-----ETKVGKDKDTE-----LGELLET 327
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
GV P+ + ++ +++ +++LL L +ER ++ +RFG+ DG P SL+E+G LS+E
Sbjct: 328 DGV-TPEEMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRE 386
Query: 444 RVRQLESRALYRLKQ 458
RVRQ+ES+AL +L+Q
Sbjct: 387 RVRQIESKALQKLRQ 401
>gi|318041016|ref|ZP_07972972.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CB0101]
Length = 323
Score = 85.9 bits (211), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 66/212 (31%), Positives = 113/212 (53%), Gaps = 20/212 (9%)
Query: 269 LLTADEEFELIAQIQD--LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
LLTADEE L +Q+ L+ E+ KL++ G P+L WA ++ LS R L+ +L
Sbjct: 27 LLTADEEISLGRAVQNGRLLLEAAEELKLRA-GGEAPSLEAWASSVNLSPRQLQRQLRLA 85
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV 386
+ E+++ ANLRLVV +A++ R + L DL+QEG++GL+++V++F P G +F+
Sbjct: 86 ERASEQMVTANLRLVVSLARRISHRRLDLDDLIQEGTLGLIRAVQRFDPSRGYKFSTYAT 145
Query: 387 EIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 438
+ + L +Q H+++ L L RC + LR + G+ +L E+
Sbjct: 146 WWIREGMGRALQQQSRTIRLPAHMQDRLQRLR---RCQMELRQML--GREPNLEELAEAT 200
Query: 439 GLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
L +R+ AL+R ++ L + +G D
Sbjct: 201 ELKPLDIRE----ALFRAQEPLSLDSGHGPED 228
Score = 45.1 bits (105), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 51/181 (28%), Positives = 76/181 (41%), Gaps = 41/181 (22%)
Query: 276 FELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
L A +QD L RL + + +L+ GREP L E A+A L D+ RE L
Sbjct: 163 IRLPAHMQDRLQRLRRCQMELRQMLGREPNLEELAEATELKPLDI----------REALF 212
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT---GVEIPDI 391
A L + G G P+ R +T G ++P
Sbjct: 213 RAQEPLSLD-----SGHG----------------------PEDDLRLLDTLRCGAQLPSD 245
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+ ++ + LL L KE ++RLR+GI+ P +LS V GLS+++ R +E R
Sbjct: 246 QLTAAHLQTDLVALLDELPEKEAELLRLRYGIDQPAPMNLSAVARQMGLSRDQARGMERR 305
Query: 452 A 452
A
Sbjct: 306 A 306
>gi|309792450|ref|ZP_07686915.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308225522|gb|EFO79285.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 311
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 82/139 (58%), Gaps = 5/139 (3%)
Query: 319 LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
L+ ++H+G ++R +LIN+NLRLVV +A++YQG G+SL DL+QEGS+GLM++V+KF P G
Sbjct: 64 LEQQVHAGANARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSLGLMRAVDKFDPSRG 123
Query: 379 CRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKER----CIVRLRFGIEDGKPKSLSEV 434
+F+ SV + + H R + ++ ER R R + + EV
Sbjct: 124 LKFSTYATYWIRQSVGRAIA-DHGRTVRLPVHLGERLSRLARARQRLTQRLDRDPTPEEV 182
Query: 435 GNIFGLSKERVRQLESRAL 453
+ G++ ++V + E AL
Sbjct: 183 ADELGITTDQVTRAEQAAL 201
Score = 53.9 bits (128), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 45/76 (59%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V L+R + ++ L +ER I+ LR+G+E +L ++G L++ERVRQLES A
Sbjct: 234 VAHGLLRDDLCEAMSHLTQRERSILNLRYGLEGETALTLEQIGQRLSLTRERVRQLESEA 293
Query: 453 LYRLKQSLGGKASYGY 468
L +L+ G+ +GY
Sbjct: 294 LRKLRDPHLGRRLHGY 309
>gi|300868700|ref|ZP_07113311.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506]
gi|300333261|emb|CBN58503.1| RNA polymerase, sigma 28 subunit [Oscillatoria sp. PCC 6506]
Length = 462
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 70/248 (28%), Positives = 113/248 (45%), Gaps = 59/248 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL--------EKE-------------K 292
D +RL+L +LL DEE ++Q IRL E+E +
Sbjct: 103 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYIRLLELRNTAAEQEEGLIRRYVELIEAR 162
Query: 293 SKLQSQFGREPTL-----------------------IEWAKAIGLSCRDLKSELHSGNSS 329
+L +Q G P+L WA+ G++ L + G +
Sbjct: 163 DRLAAQLGHRPSLERWAALAGVAEVSELKRIMAEGKRRWAELAGVTLEALDQMITEGIQA 222
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN------ 383
++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 223 KDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYAYWWI 282
Query: 384 -TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
G+ I+ Q + +R H+ L + +R I + E G+ S+ ++ G+
Sbjct: 283 RQGI-TRAIATQSRTIRLPVHITEKLNKIKKAQRKISQ-----EKGRTASIEDIAAELGM 336
Query: 441 SKERVRQL 448
+ +VR++
Sbjct: 337 TAPQVREV 344
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ + + ++ LL L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+
Sbjct: 378 PEELLMREALHRDLQQLLADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQI 437
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 438 EAKALQKLRQ 447
>gi|269215371|ref|ZP_06159225.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122]
gi|269131227|gb|EEZ62301.1| RNA polymerase sigma factor RpoD [Slackia exigua ATCC 700122]
Length = 383
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 69/227 (30%), Positives = 118/227 (51%), Gaps = 30/227 (13%)
Query: 237 NSRKASVKKKLSEG----FDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ-------DL 285
+SR + V+++ S+G DP+R++L LLTA EE +L +I+ +L
Sbjct: 58 SSRASKVRRRSSDGSSAVMLTGDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATAEL 117
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
R E E +L + R T +E A+GL + ++LI ANLRLVV +A
Sbjct: 118 ERAEDEGIELNRRDKRRLTRVE---AVGLDAK-------------QQLIEANLRLVVSIA 161
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR 403
K+Y GRG+ DL+QEG++GL+++VEKF G +F+ ++ + + Q +R
Sbjct: 162 KRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIR 221
Query: 404 NLLTLLNPKERCIVRLRFGIED-GKPKSLSEVGNIFGLSKERVRQLE 449
+ ++ + + R ++D + + E+G GLS ERVR+++
Sbjct: 222 IPVHMVETINKLVRIQRQLLQDLNRDPTPEEIGEKMGLSAERVREIQ 268
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/83 (34%), Positives = 51/83 (61%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P +L EVG
Sbjct: 288 QLGDFIEDDSAVVPPDAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPHTLEEVG 347
Query: 436 NIFGLSKERVRQLESRALYRLKQ 458
FG+++ER+RQ+ES+ L +L+
Sbjct: 348 REFGVTRERIRQIESKTLAKLRH 370
>gi|126660028|ref|ZP_01731150.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110]
gi|126618706|gb|EAZ89453.1| RNA polymerase sigma-C factor [Cyanothece sp. CCY0110]
Length = 418
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 64/202 (31%), Positives = 101/202 (50%), Gaps = 40/202 (19%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL-------------- 323
L+ Q D+ R+ +L + G P+ +WAKA +S +LK L
Sbjct: 109 LMKQFVDIHRIH---DQLMAYLGHRPSWEKWAKASEVSVFELKEILAQGKQQWATEANID 165
Query: 324 --------HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
SG +++++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL K+VEKF P
Sbjct: 166 VKELDEIQKSGIRAKDEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDP 225
Query: 376 QAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDG 426
G RF+ G+ I+ Q +++R H+ L + +R I + + G
Sbjct: 226 IKGYRFSTYAYWWIRQGI-TRAIATQSRIIRLPVHITEKLNKIKQVQRKISQAK-----G 279
Query: 427 KPKSLSEVGNIFGLSKERVRQL 448
+ +L E+G +S +VR +
Sbjct: 280 RSATLEEIGKELNMSSTQVRDV 301
Score = 58.9 bits (141), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQL----MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DIS ++ L +R+ + LL L +E+ +++LR+G EDG SL+++G LS
Sbjct: 327 LESEDISPEENLAIESLRRDIGILLEDLTEREQEVIKLRYGFEDGVSYSLADIGRTLDLS 386
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 387 RERVRQIEAKALQKLRQ 403
>gi|225450015|ref|XP_002272444.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 426
Score = 85.5 bits (210), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 44/122 (36%), Positives = 71/122 (58%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
+G +LT EE E +++ LE + ++ EPT +WA+A+G+ L
Sbjct: 122 FGAARSAVLTPREEAEFCLCLKEEAGLEAARRRIAETREHEPTSNQWAEAVGIKRSSLDK 181
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
L +G SRE++ + RLVV +A +YQG+G+SL DL+QEGS+GL++ E+F P G +
Sbjct: 182 MLCNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKL 241
Query: 382 AN 383
+
Sbjct: 242 ST 243
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 53/96 (55%), Gaps = 5/96 (5%)
Query: 369 SVEKFKPQAGCRFANTGVEIPDIS-----VQKQLMRQHVRNLLTLLNPKERCIVRLRFGI 423
SV++ GC + PD + V++QLM+Q V L L +E I+RL FGI
Sbjct: 320 SVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERALNTLCEREAYILRLYFGI 379
Query: 424 EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
P S E+G + LS+ERVRQ+ S AL +L+Q+
Sbjct: 380 NGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQT 415
>gi|354568141|ref|ZP_08987307.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
gi|353541106|gb|EHC10576.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Fischerella sp.
JSC-11]
Length = 416
Score = 85.5 bits (210), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 81/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q +R+ + +
Sbjct: 59 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLRMRIVLSNAAKQGDEILIPYLRVIEVQ 118
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P++ WA A G+ +LK L G S+
Sbjct: 119 ERLASELGHRPSIERWASAAGVEVLELKQILGQGKRRWAEIAKLTVEELEKIQSDGLQSK 178
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 76/151 (50%), Gaps = 29/151 (19%)
Query: 337 NLRLVVHVAK-------------QYQGRGISLHDLLQE----------------GSMGLM 367
+RL VH+ + Q +GR +L DL QE S+ L
Sbjct: 251 TIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAQELEMTPTQVREVLLRVPRSVSLE 310
Query: 368 KSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 427
V K K T P+ + ++ +++ +++LL L +ER ++ +RFG+ DG+
Sbjct: 311 TKVGKDKDTELGELLETDCVTPEDMLMRESLQRDLQHLLADLTSRERDVILMRFGLADGQ 370
Query: 428 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 371 PYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|3077740|dbj|BAA25788.1| SigC [Cyanidium caldarium]
Length = 424
Score = 85.1 bits (209), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 61/226 (26%), Positives = 110/226 (48%), Gaps = 34/226 (15%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
LT +E L QD L K++ +L ++ GREPT EW+ +G+S ++++E+ G +
Sbjct: 84 LTDEEVASLSLATQDYCALMKQREELCAKLGREPTDTEWSTTVGVSEEEVRNEIERGRRA 143
Query: 330 REKLINANLRLVVHVAKQYQGRG-----------------------------ISLHDLLQ 360
R +L+ +NLRLV+ +A +Y+ R I L DL+Q
Sbjct: 144 RARLVASNLRLVLAIANRYKSRAVVRSAWKSRSKGGMDMPSHEKVRLQRQHNIFLGDLIQ 203
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKE--RCIVR 418
EG++GL+++ EKF P G +F+ ++Q+ + +H R + + E R I R
Sbjct: 204 EGALGLIRAAEKFDPSKGFKFSTYATWWIRQAIQR-CVSEHSRTIRLPNHVTESLRQIYR 262
Query: 419 LRFGIED--GKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
+R ++ +P + EV ++ +R++++ A SL G
Sbjct: 263 MRARLQHVLKRPPTDEEVAEACNMTLKRLKKITQHAWKTQTLSLEG 308
Score = 45.1 bits (105), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 1/81 (1%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGI-EDGKPKSLSEVGNIFGLSKERVRQLESR 451
+++ MR+ V +L L +ER I+RLR+GI +D +P S E+ F L +R +ESR
Sbjct: 344 LERNCMREDVECVLRTLPFQEREILRLRYGISDDERPHSTEELSARFQLPVHTIRLIESR 403
Query: 452 ALYRLKQSLGGKASYGYADLL 472
AL +L+ Y ++L
Sbjct: 404 ALRKLRHPSLAAMLREYVNIL 424
>gi|416375138|ref|ZP_11683291.1| Group 2 RNA polymerase sigma factor @ Cyanobacteria-specific
RpoD-like sigma factor, type-7 [Crocosphaera watsonii WH
0003]
gi|357266581|gb|EHJ15189.1| Group 2 RNA polymerase sigma factor @ Cyanobacteria-specific
RpoD-like sigma factor, type-7 [Crocosphaera watsonii WH
0003]
Length = 418
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 73/247 (29%), Positives = 115/247 (46%), Gaps = 58/247 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LLT +EE Q+Q + L + +++
Sbjct: 61 TDLVRLYLQDIGRVPLLTKEEEVSKSRQVQRYVELLEIRNQAAENDDEIMKQFVQVHGIH 120
Query: 295 --LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------------------SR 330
L + G P+ +WAKA +S +LK L G S ++
Sbjct: 121 DQLMAYLGHRPSWEKWAKASEVSVFELKEILVQGKSQWAVLANMDVAELEEIQKSGIKAK 180
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN------- 383
+++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL K+VEKF P G RF+
Sbjct: 181 DEMIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPVKGYRFSTYAYWWIR 240
Query: 384 TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
G+ I+ Q +++R HV L + +R I + + + SL E+G G++
Sbjct: 241 QGI-TRAIATQSRIIRLPVHVTEKLNKIKQVQRKISQSK-----NRNASLEEIGQELGMT 294
Query: 442 KERVRQL 448
+VR++
Sbjct: 295 AAQVREV 301
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQL----MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E DIS ++ L +R+ + LL L +E+ +++LR+G EDG SL+++G LS
Sbjct: 327 LESEDISPEENLAVESLRRDIGVLLKDLTEREQQVIKLRYGFEDGVAYSLADIGRALELS 386
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 387 RERVRQIEAKALQKLRQ 403
>gi|282897491|ref|ZP_06305492.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
gi|281197586|gb|EFA72481.1| sigC (Sigma 28 (Flagella/Sporulation)) [Raphidiopsis brookii D9]
Length = 429
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 61/114 (53%), Gaps = 22/114 (19%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+ +L S+ G P+L WA G+ DLK L G +
Sbjct: 131 QERLVSELGHRPSLERWASTAGIKLMDLKPTLSEGKRRWGEIAQLTVEELDEIQSQGIQA 190
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 191 KEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 244
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 58/96 (60%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ ++ ++ +++ + +LL+ L +ER ++ +RFG
Sbjct: 319 SVSLETKVGKDKDTELGELLETDTITPEETLMRESLQKDIHHLLSDLTTREREVILMRFG 378
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 379 LADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 414
>gi|242078297|ref|XP_002443917.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor]
gi|241940267|gb|EES13412.1| hypothetical protein SORBIDRAFT_07g004340 [Sorghum bicolor]
Length = 500
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 79/126 (62%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +S
Sbjct: 186 RIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLHISPP 245
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N+RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 246 ELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 305
Query: 378 GCRFAN 383
G R +
Sbjct: 306 GFRIST 311
Score = 41.6 bits (96), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P +++ +++ V NL+ + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 417 PWHGFEERYLKEEVNNLINSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 474
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 475 QVGLVAMEKLKHA 487
>gi|2624403|emb|CAA74653.1| plastid RNA polymerase sigma factor [Sorghum bicolor]
Length = 500
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 42/126 (33%), Positives = 79/126 (62%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +S
Sbjct: 186 RIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLHISPP 245
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N+RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 246 ELRARMRESFLAREMLTMSNIRLVISIAQKYDNLGVELADLIQGGLIGLLRGIEKFDASR 305
Query: 378 GCRFAN 383
G R +
Sbjct: 306 GFRIST 311
Score = 40.8 bits (94), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 45/73 (61%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P +++ +++ V NL+ + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 417 PWHGFEERYLKEEVNNLINSNLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 474
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 475 QVGLVAMEKLKHA 487
>gi|37520903|ref|NP_924280.1| RNA polymerase sigma factor RpoD [Gloeobacter violaceus PCC 7421]
gi|35211898|dbj|BAC89275.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421]
Length = 350
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 5/130 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +RL+L LL EE EL +I + LE+++SK Q+ W ++
Sbjct: 39 DDLVRLYLQEIGRVALLKPAEEIELARRIATWLSLEEKRSKFQAVAAES-----WLESAN 93
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ + + + G ++ L+ ANLRLVV VAK+YQGRG+ L DL+QEG++GL+++ EKF
Sbjct: 94 LTPQQWSTIVREGERAKAHLVKANLRLVVSVAKKYQGRGLHLLDLIQEGTLGLIRAAEKF 153
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 154 DYTRGFKFST 163
Score = 75.1 bits (183), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 33/69 (47%), Positives = 52/69 (75%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V + LM Q + +LL L P+ER ++RLR+G+ DG+ ++L EVG FGL++ER+RQ+
Sbjct: 264 PEHGVVRDLMNQDLESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQQFGLTRERIRQI 323
Query: 449 ESRALYRLK 457
E+RAL +L+
Sbjct: 324 EARALRKLR 332
>gi|297736323|emb|CBI24961.3| unnamed protein product [Vitis vinifera]
Length = 319
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 44/122 (36%), Positives = 71/122 (58%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
+G +LT EE E +++ LE + ++ EPT +WA+A+G+ L
Sbjct: 15 FGAARSAVLTPREEAEFCLCLKEEAGLEAARRRIAETREHEPTSNQWAEAVGIKRSSLDK 74
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
L +G SRE++ + RLVV +A +YQG+G+SL DL+QEGS+GL++ E+F P G +
Sbjct: 75 MLCNGRESRERINQSYRRLVVSIAARYQGKGLSLQDLIQEGSIGLLRGAERFDPDRGYKL 134
Query: 382 AN 383
+
Sbjct: 135 ST 136
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 37/96 (38%), Positives = 53/96 (55%), Gaps = 5/96 (5%)
Query: 369 SVEKFKPQAGCRFANTGVEIPDIS-----VQKQLMRQHVRNLLTLLNPKERCIVRLRFGI 423
SV++ GC + PD + V++QLM+Q V L L +E I+RL FGI
Sbjct: 213 SVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERALNTLCEREAYILRLYFGI 272
Query: 424 EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
P S E+G + LS+ERVRQ+ S AL +L+Q+
Sbjct: 273 NGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQT 308
>gi|87125501|ref|ZP_01081346.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
gi|86166801|gb|EAQ68063.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9917]
Length = 312
Score = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 54/145 (37%), Positives = 82/145 (56%), Gaps = 16/145 (11%)
Query: 241 ASVKKKLSEGFDR--NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
AS+ L+E R +DP+ +L LLT EE EL Q+Q+++RL ++ +
Sbjct: 2 ASLAAGLAESQRRRSSDPISWYLATIGRIPLLTPAEEIELGNQVQEMMRLTEDGTLAPDH 61
Query: 299 FGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDL 358
G S D + + G ++E+++ ANLRLVV VAK+YQG+G+ L DL
Sbjct: 62 DG-------------FSSHD-RRMIRVGKRAKERMMKANLRLVVSVAKKYQGKGLELLDL 107
Query: 359 LQEGSMGLMKSVEKFKPQAGCRFAN 383
+QEGS+GL ++VEKF P G +F+
Sbjct: 108 IQEGSLGLERAVEKFDPTRGYKFST 132
Score = 47.8 bits (112), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 50/80 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+T + P V++ + + + L+ L+ +E+ ++ LRFG+ + +L+E+G +
Sbjct: 224 GDLIADTSHDEPLDKVEQSIHHEQLGRWLSHLSEQEQYVLGLRFGLNGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 MEVSRERVRQVELKALRKLR 303
>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 = 85.1 bits (209), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 58/189 (30%), Positives = 92/189 (48%), Gaps = 48/189 (25%)
Query: 239 RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ 298
RK +VKKK D +R++L +LL A+EE EL QI DL+ LE + L Q
Sbjct: 59 RKDAVKKKPYT----EDSIRIYLQEIGRIRLLRAEEEIELARQIADLLELELIRDNLTLQ 114
Query: 299 FGREPTLIEWAKAIG----------------LSCRDLKSELHSGNS-------------- 328
R+P+ +EW K + +D+ S L + ++
Sbjct: 115 LERQPSELEWGKQVWKLETAKQRLVGDKKKEPKKKDIDSYLANPDNELSLENEWSQQPNK 174
Query: 329 --------------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 175 NFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 234
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 235 HEKGYKFST 243
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 336 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 395
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 396 TRERIRQIEAKALRKLR 412
>gi|427412602|ref|ZP_18902794.1| RNA polymerase sigma factor RpoD [Veillonella ratti
ACS-216-V-Col6b]
gi|425716409|gb|EKU79393.1| RNA polymerase sigma factor RpoD [Veillonella ratti
ACS-216-V-Col6b]
Length = 394
Score = 84.7 bits (208), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 63/224 (28%), Positives = 114/224 (50%), Gaps = 31/224 (13%)
Query: 232 NHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE 291
++E +++ S+ + EG + +DP+R++L LL+ADEE L QI+
Sbjct: 89 SNEVREAKEVSLDLSIPEGVNIDDPVRMYLKEIGRVPLLSADEEILLAQQIE-------A 141
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
+K + + E+ +G +++KLI+ANLRLVV +AK+Y GR
Sbjct: 142 GAKDDASY---------------------KEMKAGEKAKQKLIDANLRLVVSIAKRYVGR 180
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLL 409
G+ DL+QEG++GL+K+V+KF G +F+ ++ + + Q +R + ++
Sbjct: 181 GMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMV 240
Query: 410 NPKERCIVRLRFGIED-GKPKSLSEVGNIFGLSKERVRQLESRA 452
+ I R ++D G+ E+ G+S ERVR+++ A
Sbjct: 241 ETINKLIRISRQLLQDKGREPLPEEIAEGMGISVERVREIQKIA 284
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 50/69 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + L+++ + ++ + L +E+ ++ LRFG++DGKP++L EVG F +++ER+RQ+
Sbjct: 314 PDDAASYILLKEQIEDVFSCLTDREQQVLVLRFGLKDGKPRTLEEVGQHFNVTRERIRQI 373
Query: 449 ESRALYRLK 457
E +AL +L+
Sbjct: 374 EGKALTKLR 382
>gi|3769432|gb|AAC78468.1| RNA polymerase sigma factor 2 [Zea mays]
Length = 349
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 78/125 (62%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +S
Sbjct: 35 RIYLRGTVSKDLLTHKQVIQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRISAP 94
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N+RLV+ +A +Y G+ L DL+Q G +GL++ +EKF
Sbjct: 95 ELRARMRESFLAREMLTMSNIRLVISIAHKYDNLGVDLADLIQGGLIGLLRGIEKFDASR 154
Query: 378 GCRFA 382
G R +
Sbjct: 155 GFRIS 159
Score = 40.0 bits (92), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 44/73 (60%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P ++ +++ V NL+ + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 266 PWHGFEEMYLKEEVNNLINSNLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 323
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 324 QVRLVAMEKLKHA 336
>gi|326523529|dbj|BAJ92935.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 43/126 (34%), Positives = 78/126 (61%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL G EP+ + A+++ +S
Sbjct: 192 RIYLRGTVSKELLTHKQVVHLSKKIKDGIWLQQQRSKLTEILGNEPSYKQMAQSLRISTP 251
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S + +RE L +N+RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 252 ELRSRMRESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASR 311
Query: 378 GCRFAN 383
G R +
Sbjct: 312 GFRIST 317
>gi|220907205|ref|YP_002482516.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7425]
gi|219863816|gb|ACL44155.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 455
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 56/172 (32%), Positives = 81/172 (47%), Gaps = 42/172 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ----------------- 296
D +RL+L +LL DEE ++Q +RL + + ++Q
Sbjct: 99 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYMRLVELRDQVQADHQPIQQYVHLIDIHD 158
Query: 297 ---SQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------------------SRE 331
+Q G P L WA+ G+ LK+ L G ++E
Sbjct: 159 RLAAQLGHRPPLERWAREAGVVAGQLKTLLAEGKQAWATAIGMMVGELDQIQKEGVRAKE 218
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 219 HMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFST 270
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 51/77 (66%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E D+S ++ +MR+ + LL L +ER ++ +RFG+ DG SL+++G LS
Sbjct: 364 LETDDLSPEEMMMRESLHRELEKLLADLTSRERDVISMRFGLGDGHAYSLADIGRALDLS 423
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 424 RERVRQIEAKALQKLRQ 440
>gi|326512474|dbj|BAJ99592.1| predicted protein [Hordeum vulgare subsp. vulgare]
Length = 506
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 43/126 (34%), Positives = 78/126 (61%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G +++LLT + L +I+D I L++++SKL G EP+ + A+++ +S
Sbjct: 192 RIYLRGTVSKELLTHKQVVHLSKKIKDGIWLQQQRSKLTEILGNEPSYKQMAQSLRISTP 251
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L+S + +RE L +N+RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 252 ELRSRMRESFLAREVLTMSNIRLVISIAQKYDKLGVELSDLIQGGLIGLLRGIEKFDASR 311
Query: 378 GCRFAN 383
G R +
Sbjct: 312 GFRIST 317
>gi|282900041|ref|ZP_06308000.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis
raciborskii CS-505]
gi|281195073|gb|EFA70011.1| sigC (Sigma 28 (Flagella/Sporulation)) [Cylindrospermopsis
raciborskii CS-505]
Length = 432
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 45/114 (39%), Positives = 61/114 (53%), Gaps = 22/114 (19%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+ +L S+ G P+L WA G+ DLK L G +
Sbjct: 134 QERLVSELGHRPSLERWASTAGIKLVDLKPTLSEGKRRWAEIAKLTVEELDQIQSQGIQA 193
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 194 KEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 247
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 34/96 (35%), Positives = 58/96 (60%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ ++ ++ +++ + +LL+ L +ER ++ +RFG
Sbjct: 322 SVSLETKVGKDKDTELGELLETDTITPEETLMRESLQKDIHHLLSDLTTREREVILMRFG 381
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 382 LADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 417
>gi|119487601|ref|ZP_01621211.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106]
gi|119455770|gb|EAW36906.1| RNA polymerase sigma-like factor [Lyngbya sp. PCC 8106]
Length = 404
Score = 84.7 bits (208), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 63/114 (55%), Gaps = 22/114 (19%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+S+L +Q G P+L WA G+ DLK + +G +
Sbjct: 106 RSRLVAQLGHSPSLERWAAVSGVEVSDLKPIIAAGKRRWAELAELTVEELDQVQTEGIKA 165
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 166 KDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFST 219
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 50/71 (70%), Gaps = 4/71 (5%)
Query: 392 SVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
S + QLMR+ ++ LL L+ +ER ++++R+G+ +G SL+E+G LS+ERVRQ
Sbjct: 319 SPEDQLMRESLHRDLQQLLADLSDRERDVIQMRYGLGNGHTYSLAEIGRELELSRERVRQ 378
Query: 448 LESRALYRLKQ 458
+E++AL +L+Q
Sbjct: 379 IEAKALQKLRQ 389
>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 = 84.7 bits (208), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 52/175 (29%), Positives = 86/175 (49%), Gaps = 46/175 (26%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-- 312
D +R++L +LL A+EE EL +I DL++LE+ + L + +EPT +W K I
Sbjct: 60 DSIRVYLQEIGRIRLLRAEEEIELARKIADLLQLERIREALWEELDQEPTDEQWGKRIFQ 119
Query: 313 ---------GLSCRD-----------------------------------LKSELHSGNS 328
S ++ K L+ G
Sbjct: 120 WENIEQMLRAQSSKEKEPKWSEVTDMLQKAEIISDLEKTWKLESKAYLPKFKRRLYLGRK 179
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++K++++NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 180 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLR 403
>gi|350270188|ref|YP_004881496.1| RNA polymerase sigma factor SigA [Oscillibacter valericigenes
Sjm18-20]
gi|348595030|dbj|BAK98990.1| RNA polymerase sigma factor SigA [Oscillibacter valericigenes
Sjm18-20]
Length = 493
Score = 84.7 bits (208), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 54/133 (40%), Positives = 79/133 (59%), Gaps = 4/133 (3%)
Query: 251 FDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAK 310
F +DP+R++L LLT DEE +L ++ E++ +L Q RE + A
Sbjct: 167 FAIDDPVRMYLKEIGKVPLLTPDEEVDLAQRMASGAEAERKLKELTGQ--REAG--DPAA 222
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A LK LHSG ++++KL ANLRLVV +AK+Y GRG+ DL+QEG++GL+K+V
Sbjct: 223 ATKEEEAALKKALHSGENAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAV 282
Query: 371 EKFKPQAGCRFAN 383
EKF G +F+
Sbjct: 283 EKFDYTKGYKFST 295
Score = 70.9 bits (172), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + G P + +L+R+ + ++L+ L P+E +++LRFGIEDG+ ++L EVG
Sbjct: 401 GDFIPDEGASEPSEAASYKLLREQLMDVLSTLTPREEQVLKLRFGIEDGRARTLEEVGKE 460
Query: 438 FGLSKERVRQLESRALYRLKQ 458
F +++ER+RQ+E++AL +L+
Sbjct: 461 FNVTRERIRQIEAKALRKLRH 481
>gi|148658692|ref|YP_001278897.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1]
gi|148570802|gb|ABQ92947.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp.
RS-1]
Length = 401
Score = 84.3 bits (207), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 78/130 (60%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA EE L Q++ R E+ +LQ ++A +
Sbjct: 103 DDPVRVYLREIGRVNLLTAQEEIMLAQQVE---RGEQASERLQKG--------DYAPSER 151
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L L + G ++RE+LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++ EKF
Sbjct: 152 LQ---LHRWVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKF 208
Query: 374 KPQAGCRFAN 383
+ G +F+
Sbjct: 209 DYRKGYKFST 218
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 87/183 (47%), Gaps = 35/183 (19%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
R+ + +++Q GR+PT E A +G+ +R V+ A+
Sbjct: 251 RVMRASNRIQQTTGRDPTPDEIALELGIPV-------------------EKVRRVLEAAR 291
Query: 347 QYQGRGISLHD-LLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNL 405
Q ISL + EG L +E K GV P S ++R+ + +
Sbjct: 292 Q----TISLETPIGTEGDTVLADFIEDGK----------GV-TPMDSASHHILREQIDSA 336
Query: 406 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKAS 465
L L +ER I++LR+G+ DG ++L EVG FG+++ER+RQ+E+R L +L+ G+
Sbjct: 337 LEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHPHYGRGL 396
Query: 466 YGY 468
GY
Sbjct: 397 RGY 399
>gi|218439766|ref|YP_002378095.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218172494|gb|ACK71227.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 418
Score = 84.3 bits (207), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 67/121 (55%), Gaps = 22/121 (18%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAI----------------------GLSCRDLKSE 322
+ L +++ +L SQ G P+L +WA A GL ++L+
Sbjct: 113 FVNLVEKRDQLTSQLGHRPSLEKWADAAEVSVFEVKQILNEGKRHWANLAGLKVQELEQI 172
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+G ++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 173 QKAGIEAKNHMIKANLRLVVSVAKRYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFS 232
Query: 383 N 383
Sbjct: 233 T 233
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 52/70 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ S+ + +RQ ++NLL L +ER ++++R+G +DGK SL+++G LS+ERVRQ+
Sbjct: 334 PEESLVNETLRQDLQNLLADLTTREREVIQMRYGFKDGKCYSLADIGRALQLSRERVRQI 393
Query: 449 ESRALYRLKQ 458
E++A+ +L+Q
Sbjct: 394 EAKAIQKLRQ 403
>gi|186681474|ref|YP_001864670.1| RNA polymerase sigma factor SigC [Nostoc punctiforme PCC 73102]
gi|186463926|gb|ACC79727.1| RNA polymerase, sigma 70 subunit, RpoD family [Nostoc punctiforme
PCC 73102]
Length = 416
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/120 (37%), Positives = 65/120 (54%), Gaps = 22/120 (18%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------ 327
+RL + + +L S+ G P+L WA + DL+ L +G
Sbjct: 112 LRLVEVQERLTSELGHRPSLERWAATADIVLSDLRPTLANGKRRWAEIAKLTVEELEQVQ 171
Query: 328 ----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 172 SQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 58/96 (60%)
Query: 363 SMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 422
S+ L V K K T P+ + ++ +++ + +LL+ L +ER ++ +RFG
Sbjct: 306 SVSLETKVGKDKDTELGELLETDCVTPEEMLMRESLQRDLHHLLSDLTSRERDVILMRFG 365
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 366 LADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|352095714|ref|ZP_08956728.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351678856|gb|EHA62001.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 355
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 72/245 (29%), Positives = 114/245 (46%), Gaps = 53/245 (21%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKL--------------------Q 296
+RL+L LLTA++E L +Q RL++E+ +
Sbjct: 1 MRLYLQDIGRVDLLTAEDEVVLSRLVQQYERLKREERQFAEDHPAIERLLCLEELQLREA 60
Query: 297 SQFGREPTLIEWAKA----------------------IGLSCRDLKSELHSGNSSREKLI 334
+ PT EWA+A I RDL+ L G +R+++I
Sbjct: 61 NHLSHWPTRQEWARAAEMPLQELNLALTEGYQTWADLITSDSRDLQRRLREGRKARDRMI 120
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN-------TGVE 387
ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF G RF+ G+
Sbjct: 121 QANLRLVVAVAKKYQHRGMELLDLVQEGTLGLERAVEKFDSTRGFRFSTYSYWWIRQGI- 179
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
I+ Q + +R V ++ LN +R V+ +G+ S++++ +S++ VRQ
Sbjct: 180 TRAIATQSRTIRLPV-HITEKLNRIKR--VQQEIASTEGRTASVTDLARELSVSEDTVRQ 236
Query: 448 LESRA 452
+R
Sbjct: 237 TLARV 241
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ + + + +LL L P+E ++R RFG+ED P++L+++G LS+ERVRQ+
Sbjct: 270 PEQTLTRDALHDDLEHLLDELTPREATVIRCRFGLEDDTPRTLAQIGEDMNLSRERVRQI 329
Query: 449 ESRALYRLKQ 458
E+RAL +L+Q
Sbjct: 330 ETRALLKLRQ 339
>gi|434400128|ref|YP_007134132.1| RNA polymerase, sigma subunit, RpsC/SigC [Stanieria cyanosphaera
PCC 7437]
gi|428271225|gb|AFZ37166.1| RNA polymerase, sigma subunit, RpsC/SigC [Stanieria cyanosphaera
PCC 7437]
Length = 416
Score = 84.0 bits (206), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/124 (36%), Positives = 67/124 (54%), Gaps = 22/124 (17%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL----------------------SCRDL 319
+Q+ + L +L SQ P+L WA+ +G+ S ++L
Sbjct: 108 LQEFVELIDAHDRLVSQLSHRPSLRRWAQTVGMEIPLLKERLSVGKHRWAEVVNCSVKEL 167
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G
Sbjct: 168 ERIQRDGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGY 227
Query: 380 RFAN 383
RF+
Sbjct: 228 RFST 231
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ ++ +++ ++ LL+ L +ER ++++RFG KP SL+E+G LS+ERVRQ+
Sbjct: 332 PEETLMRESLQKDLQYLLSELTSREREVIQMRFGFGGEKPFSLAEIGRCLELSRERVRQI 391
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 392 EAKALQKLRQ 401
>gi|427734848|ref|YP_007054392.1| RNA polymerase, sigma subunit, RpsC/SigC [Rivularia sp. PCC 7116]
gi|427369889|gb|AFY53845.1| RNA polymerase, sigma subunit, RpsC/SigC [Rivularia sp. PCC 7116]
Length = 419
Score = 84.0 bits (206), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 54/173 (31%), Positives = 80/173 (46%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------------------KEK 292
D +RL+L +LL DEE ++Q ++L + +
Sbjct: 62 TDLVRLYLQEIGRVRLLGRDEEVSEAQKVQRYLKLRILLSEAASKGDELLAHYLKIIEAQ 121
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
+L S+ G P++ WA G+ +LK L G ++
Sbjct: 122 ERLTSELGHRPSMKRWANTAGIEESELKGALSQGKRRWAETAKLTVQELEQIQTQGLQAK 181
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 182 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 234
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 53/77 (68%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E ++ ++ LMR+ ++NLL L +ER ++ +RFG+ DG P SL+E+G LS
Sbjct: 328 LETDGVTPEEMLMRESLQRDLQNLLADLTTRERDVILMRFGLADGHPYSLAEIGRALDLS 387
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 388 RERVRQIESKALQKLRQ 404
>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 = 84.0 bits (206), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/202 (30%), Positives = 103/202 (50%), Gaps = 20/202 (9%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLT EE +L +IQ+ I E E ++ +
Sbjct: 90 GVRINDPVRMYLKEIGRVDLLTGKEEVDLAIRIQESIEAEAELAETNEMTPK-------- 141
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ + + G ++++KL ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 142 ---------IDAAIIRGENAKKKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 192
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-G 426
VEKF G +F+ ++ + + Q +R + ++ + I R ++D G
Sbjct: 193 VEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 252
Query: 427 KPKSLSEVGNIFGLSKERVRQL 448
+ S E+G L+ E+VR++
Sbjct: 253 REPSPEEIGEEMDLTPEKVREI 274
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 50/62 (80%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 315 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 374
Query: 456 LK 457
L+
Sbjct: 375 LR 376
>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 = 84.0 bits (206), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFRLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIAEKSEKEPKLSDIKAYLGKTELMAPMLEEWQAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|3077738|dbj|BAA25787.1| SigB [Cyanidium caldarium]
Length = 424
Score = 83.6 bits (205), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/226 (26%), Positives = 109/226 (48%), Gaps = 34/226 (15%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
LT +E L QD L K++ +L ++ GREPT EW+ +G+S +++ + G +
Sbjct: 84 LTDEEVASLSMATQDYCALMKQREELCAKLGREPTDTEWSTTVGVSEEEVRKRIERGRRA 143
Query: 330 REKLINANLRLVVHVAKQYQGRG-----------------------------ISLHDLLQ 360
RE+L+ +NLRLV+ +A +Y+ R I L DL+Q
Sbjct: 144 RERLVASNLRLVLAIANRYKLRAVVCSAWKSRSKGGMDMPSHEKVRLQRQHNIFLGDLIQ 203
Query: 361 EGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKE--RCIVR 418
EG++GL+++ EKF P G +F+ ++Q+ + +H R + + E R I R
Sbjct: 204 EGALGLIRAAEKFDPSKGFKFSTYATWWIRQAIQR-CVSEHSRTIRLPNHVTESLRQIYR 262
Query: 419 LRFGIED--GKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 462
+R ++ +P + EV ++ +R++++ A SL G
Sbjct: 263 MRARLQHVLKRPPTDEEVAEACNMTLKRLKKITQHAWETQTLSLEG 308
Score = 44.7 bits (104), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 45/81 (55%), Gaps = 1/81 (1%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGI-EDGKPKSLSEVGNIFGLSKERVRQLESR 451
+++ MR+ V +L L +ER I+RLR+GI +D +P S E+ F L +R +ESR
Sbjct: 344 LERNCMREDVECVLRTLPFQEREILRLRYGISDDERPHSTEELSARFQLPVHTIRLIESR 403
Query: 452 ALYRLKQSLGGKASYGYADLL 472
AL +L+ Y ++L
Sbjct: 404 ALRKLRHPSLAAMLREYVNIL 424
>gi|296269171|ref|YP_003651803.1| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM
43833]
gi|296091958|gb|ADG87910.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora
bispora DSM 43833]
Length = 367
Score = 83.6 bits (205), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 76/134 (56%), Gaps = 14/134 (10%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G ND +R++L LLTA+EE EL +++ E L E
Sbjct: 66 GAPTNDLVRIYLREIGKVPLLTAEEEVEL-------------AKAIEAGLFAEDKLCE-K 111
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
KA G+ C +L+ + G ++++LI ANLRLVV +AK+Y GRG+ DL+QEG++GL+++
Sbjct: 112 KAAGIECPELEDLVWEGIRAKQRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRA 171
Query: 370 VEKFKPQAGCRFAN 383
VEKF G +F+
Sbjct: 172 VEKFDYTKGYKFST 185
Score = 68.9 bits (167), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 52/74 (70%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ H+ ++L+ L+ +E+ I++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 294 LLQDHLDDILSTLSEREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKL 353
Query: 457 KQSLGGKASYGYAD 470
+ + Y D
Sbjct: 354 RHPTRAQVLRDYLD 367
>gi|359463990|ref|ZP_09252553.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 326
Score = 83.6 bits (205), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 50/118 (42%), Positives = 71/118 (60%), Gaps = 6/118 (5%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI---EWAKAIGLSCRDLKSELHS 325
LLT ++E Q+Q + L K +L+ PT I +WA+A+ L+ +L+ L
Sbjct: 29 LLTHEQEVLYGKQVQQMKMLLARKVELEE---INPTSISQADWAQAVELTESELEQALVQ 85
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G ++ K+I ANLRLVV VAKQY R + L DL+QEGS+GL + V+KF P G RF+
Sbjct: 86 GQRAKNKMIQANLRLVVSVAKQYLRRNMELLDLIQEGSLGLERGVDKFDPSKGYRFST 143
Score = 52.0 bits (123), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 47/70 (67%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q ++ + L+P ++ ++ LRFG+ DG+P S +++G+ LS+ER+R+L
Sbjct: 245 PDDYVTQNALIQDIQAVFAELSPLQQDVLTLRFGLGDGEPLSFAKIGDRLNLSRERIRRL 304
Query: 449 ESRALYRLKQ 458
++AL ++Q
Sbjct: 305 INQALDHIRQ 314
>gi|317969130|ref|ZP_07970520.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CB0205]
Length = 309
Score = 83.2 bits (204), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 72/129 (55%), Gaps = 18/129 (13%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+ +L LLT EE EL Q+Q ++RL +E G T E
Sbjct: 18 DPISWYLSTIGRVPLLTPAEEIELGNQVQAMMRLAEEDK------GEAYTTHE------- 64
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
K + G S+E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 65 -----KKIMRVGKRSKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFD 119
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 120 PTRGYKFST 128
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 46/70 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P V++ + ++ + LT L +ER ++ LRFG+E + +L+E+G + +S+ERVRQ+
Sbjct: 231 PLDQVERGIHQEQLGRWLTHLTDQERQVLELRFGLEGEERHTLAEIGRMLEVSRERVRQV 290
Query: 449 ESRALYRLKQ 458
E +AL +L+
Sbjct: 291 ELKALRKLRH 300
>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 = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIAEKSEKEPKLSDIKAYLGKTELMAPMLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|318042101|ref|ZP_07974057.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CB0101]
Length = 309
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/130 (40%), Positives = 76/130 (58%), Gaps = 18/130 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++RL +E EP G
Sbjct: 17 SDPISWYLSTIGRVPLLTPAEEIELGNQVQAMMRLTEE----------EP-------ENG 59
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + K+ + G S+E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 60 YTDQQKKT-IRVGRRSKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 118
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 119 DPTRGYKFST 128
Score = 50.1 bits (118), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 49/76 (64%), Gaps = 1/76 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
N+ VE P V++ + + + L+ L +ER ++ LRFG+E + +L+E+G + +S+
Sbjct: 226 NSHVE-PLDQVERGMHHEQLGRWLSHLTEQERQVLELRFGLEGEERHTLAEIGRMLDVSR 284
Query: 443 ERVRQLESRALYRLKQ 458
ERVRQ+E +AL +L+
Sbjct: 285 ERVRQVELKALRKLRH 300
>gi|269926941|ref|YP_003323564.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermobaculum
terrenum ATCC BAA-798]
gi|269790601|gb|ACZ42742.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum
terrenum ATCC BAA-798]
Length = 596
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 46/131 (35%), Positives = 78/131 (59%), Gaps = 5/131 (3%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+ G+ +R++LI ANLRLVV +AK+Y GRGI+L DL+QEG++GL+K+VEKF+ Q G +F+
Sbjct: 249 IAEGDIARKRLIEANLRLVVSIAKKYTGRGITLLDLIQEGNIGLIKAVEKFRHQKGYKFS 308
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKER----CIVRLRFGIEDGKPKSLSEVGNIF 438
++ + + Q R + ++ E R R E G+ + E+ N
Sbjct: 309 TYATWWIRQAITRAIADQ-ARTIRIPVHMGEAINKIAQARRRLTQELGREPTEQEIANYL 367
Query: 439 GLSKERVRQLE 449
G+ E++R+++
Sbjct: 368 GIPVEKIREVQ 378
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 49/65 (75%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
Q +R+ + +++ + ER ++R RFG++ G+P++L EVG FG+++ER+RQ+ES+AL +
Sbjct: 522 QKLREALASVMLHVPAPERDMMRFRFGLDIGQPRTLEEVGRAFGVTRERIRQIESKALRK 581
Query: 456 LKQSL 460
L++ +
Sbjct: 582 LRRDV 586
Score = 41.2 bits (95), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + + L+R + +L L+ +ER ++ +RFG+ D +P+ EV +I +S +V Q
Sbjct: 411 PMDAASQSLLRDQIDQVLKHLSERERGVLLMRFGL-DCEPRPYREVAHILAVSPNQVMQA 469
Query: 449 ESRAL 453
ESR L
Sbjct: 470 ESRVL 474
>gi|159901184|ref|YP_001547431.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159894223|gb|ABX07303.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 375
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 68/218 (31%), Positives = 109/218 (50%), Gaps = 43/218 (19%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQD----LIRLEK------EKSKLQ 296
+ EG +DP+R++L LLTA EE L Q++ +IRL + EK++LQ
Sbjct: 69 IREGVSLDDPVRMYLREIGQVHLLTAHEETMLAKQLERGERAMIRLARHEYLLEEKARLQ 128
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
Q L+SE ++R+ LI ANLRLVV +AK+Y GRG+S
Sbjct: 129 QQV-------------------LESE-----AARQHLIQANLRLVVSIAKKYVGRGMSFL 164
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLT------LLN 410
DL+QEG++GLM++ EKF G +F+ ++ + + H R + +N
Sbjct: 165 DLIQEGNIGLMRATEKFDYHKGFKFSTYATWWIRQAITRSIS-DHSRTIRLPVHVGETIN 223
Query: 411 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+R +L+ +E + S E+G GL ++VR++
Sbjct: 224 RVKRTAHKLQQALE--REPSAEEIGEALGLPADKVRRV 259
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
+ L+R+ + +L L+ +ER I+ LR+G+ DGK ++L EVG FG+++ER+RQ+E++ L
Sbjct: 299 EHLLREQLDEVLCKLDERERRIIELRYGLVDGKYRTLEEVGREFGITRERIRQIEAKVLR 358
Query: 455 RLKQ-SLGGKASYGY 468
+L+ + GG+ Y
Sbjct: 359 KLRHPAFGGRKLRAY 373
>gi|402829507|ref|ZP_10878383.1| RNA polymerase sigma factor RpoD [Slackia sp. CM382]
gi|402284488|gb|EJU32991.1| RNA polymerase sigma factor RpoD [Slackia sp. CM382]
Length = 394
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 107/206 (51%), Gaps = 26/206 (12%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ-------DLIRLEKEKSKLQSQFGREPTLI 306
DP+R++L LLTA EE +L +I+ +L R E E +L + R T +
Sbjct: 90 GDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATAELERAEDEGIELNRRDKRRLTRV 149
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E A+GL + ++LI ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 150 E---AVGLDAK-------------QQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 193
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIE 424
+++VEKF G +F+ ++ + + Q +R + ++ + + R ++
Sbjct: 194 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQ 253
Query: 425 D-GKPKSLSEVGNIFGLSKERVRQLE 449
D + + E+G GLS ERVR+++
Sbjct: 254 DLNRDPTPEEIGEKMGLSAERVREIQ 279
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 51/82 (62%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P +L EVG
Sbjct: 299 QLGDFIEDDSAVVPPDAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPHTLEEVG 358
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 359 REFGVTRERIRQIESKTLAKLR 380
>gi|219849586|ref|YP_002464019.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus
aggregans DSM 9485]
gi|219543845|gb|ACL25583.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus
aggregans DSM 9485]
Length = 314
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 66/209 (31%), Positives = 109/209 (52%), Gaps = 20/209 (9%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G +D + L+L LLT ++E +L I + + + EP+L
Sbjct: 8 GRSASDTIVLYLNEIGAEPLLTFEQEQQLAQTI-------AQGRRAAERLTNEPSLHSTE 60
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
K + L +++ +G +R +LIN+NLRLVV +A++YQG G++L DL+QEGS+GLM++
Sbjct: 61 K------KRLAAQVAAGEQARAQLINSNLRLVVSIARRYQGHGLTLLDLIQEGSIGLMRA 114
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC--IVRLRFGIE--- 424
V+KF G +F+ S+ + + H R + ++ ER + RLR +
Sbjct: 115 VDKFDAGRGLKFSTYATYWIRQSIGRAIA-DHSRTVRLPVHLGERLSRLARLRQELAQQL 173
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLESRAL 453
D +P +L E+ N GLS E+V + E L
Sbjct: 174 DREP-TLEELANAAGLSVEQVERAEQAGL 201
Score = 58.5 bits (140), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 51/176 (28%), Positives = 82/176 (46%), Gaps = 39/176 (22%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L RL + + +L Q REPTL E A A GLS ++ +G +
Sbjct: 159 LSRLARLRQELAQQLDREPTLEELANAAGLSVEQVERAEQAGLAP--------------- 203
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSV--EKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
SL + E G + + + +P P V + +++ V
Sbjct: 204 --------TSLDEAHTEDGGGALSEILTDPLQP------------TPFDEVSEGMLQADV 243
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ L+ L+P+ER I+RLR+G+ DG+P +L ++G L++ERVRQLE AL +L+
Sbjct: 244 QAALSQLSPRERNILRLRYGL-DGEPMHTLEQIGQRLRLTRERVRQLEYEALRKLR 298
>gi|443313785|ref|ZP_21043395.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
gi|442776198|gb|ELR86481.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechocystis sp. PCC 7509]
Length = 440
Score = 83.2 bits (204), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 38/76 (50%), Positives = 52/76 (68%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ GL+ L+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 180 WAEIAGLTVEQLEQIQTQGVRAKEHMIQANLRLVVSVAKKYQNRGLELLDLVQEGTLGLE 239
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 240 RAVEKFDPTKGYRFST 255
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 34/77 (44%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQHVRN----LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E IS + LMR+ ++ LLT L+ +ER ++ +RFG+ DG SL+E+G LS
Sbjct: 349 LETDTISPEDVLMRESLQRDLQYLLTDLSDRERDVILMRFGLGDGHAYSLAEIGRALDLS 408
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+ES+AL +L+Q
Sbjct: 409 RERVRQIESKALQKLRQ 425
>gi|169883526|gb|ACA97858.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820]
Length = 416
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>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 = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|342213895|ref|ZP_08706614.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 780
str. F0422]
gi|341597483|gb|EGS40042.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 780
str. F0422]
Length = 410
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 112/227 (49%), Gaps = 31/227 (13%)
Query: 226 SKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDL 285
S + E ++ ++ + EG + +DP+R++L LL+ DEE L QI
Sbjct: 99 SDIDIATEEDDEEKEINLDLSIPEGMNIDDPVRMYLKEIGRVPLLSGDEEIILAQQI--- 155
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
E G + + E+ G+S+++KLI+ANLRLVV +A
Sbjct: 156 ---------------------EAGNQEGATYK----EVRLGSSAKQKLIDANLRLVVSIA 190
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR 403
K+Y GRG+ DL+QEG++GL+K+V+KF G +F+ ++ + + Q +R
Sbjct: 191 KRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIR 250
Query: 404 NLLTLLNPKERCIVRLRFGIED-GKPKSLSEVGNIFGLSKERVRQLE 449
+ ++ + + R ++D G+ S E+ G++ ERVR+++
Sbjct: 251 IPVHMVETINKLVRIQRQLLQDLGREPSPEEIAEGMGITVERVREIQ 297
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 49/69 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + L+R+ + + + L +E+ ++ LRFG++DGKP++L EVG F +++ER+RQ+
Sbjct: 330 PDDAASFILLREQIVEVFSCLTDREQQVLELRFGLKDGKPRTLEEVGQFFNVTRERIRQI 389
Query: 449 ESRALYRLK 457
E +AL +L+
Sbjct: 390 EGKALTKLR 398
>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 = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|428774079|ref|YP_007165867.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium stanieri
PCC 7202]
gi|428688358|gb|AFZ48218.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium stanieri
PCC 7202]
Length = 389
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 59/89 (66%), Gaps = 6/89 (6%)
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
LQS F + WA+ LS +L+ L G +++++INANLRLVV +AK+YQ RG+
Sbjct: 122 LQSGFQK------WAELADLSVDELREILSVGKRAKQQMINANLRLVVSIAKKYQNRGLD 175
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L DL+QEG++GL K+VEKF + G F+
Sbjct: 176 LLDLIQEGTLGLEKAVEKFDYRKGYHFST 204
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 50/75 (66%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
MRQ V LL L+ +E I+RLR+G EDGK SLS+ + LS+ERVRQ++++A+ +L+
Sbjct: 314 MRQDVSTLLDTLSEREAKILRLRYGFEDGKTYSLSDTAQMMHLSRERVRQIQAKAIQKLR 373
Query: 458 QSLGGKASYGYADLL 472
Q + + Y +++
Sbjct: 374 QPNTRQQLHDYLEII 388
>gi|168703618|ref|ZP_02735895.1| transcription initiation factor sigma 70 [Gemmata obscuriglobus UQM
2246]
Length = 521
Score = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 59/179 (32%), Positives = 97/179 (54%), Gaps = 35/179 (19%)
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
QI L R+EK + +L GREPT E A+A+G+ + +S LR+
Sbjct: 361 QISLLSRMEKLRGELTVATGREPTSEELAEALGVKPEEARS----------------LRI 404
Query: 341 VVHVAKQYQGRG-ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
V GR +SL+D + G G +++E F ++T + P V L++
Sbjct: 405 V--------GRHPVSLNDSV--GGDG-ERALEDF-------LSDTHISPPGEHVDANLLK 446
Query: 400 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ + +L L P+ER ++ LRFG++DG PK+L EV +G+++ER+RQ+E+R L +L+Q
Sbjct: 447 ERIGEVLKSLAPREREVIELRFGLKDGTPKTLDEVAKQYGITRERIRQIEARGLLKLRQ 505
Score = 60.5 bits (145), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 74/153 (48%), Gaps = 11/153 (7%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
+ R++L ANLRLVV +AK Y+ RG+ DL+QEG+ GLM++V+K++ + +F
Sbjct: 279 AVRKELAEANLRLVVSIAKNYRNRGLPFSDLIQEGNRGLMRAVDKYEWRLEFKFGTYATW 338
Query: 388 IPDISVQKQLMRQHVRNL------LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+ + L + R + ++LL+ E+ +R + G+ + E+ G+
Sbjct: 339 WVRQGITRAL-HDNARTVRVPCHQISLLSRMEK--LRGELTVATGREPTSEELAEALGVK 395
Query: 442 KERVRQLE--SRALYRLKQSLGGKASYGYADLL 472
E R L R L S+GG D L
Sbjct: 396 PEEARSLRIVGRHPVSLNDSVGGDGERALEDFL 428
>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 = 82.8 bits (203), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 45/127 (35%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
WG + LT+ EE EL+ + + L + +S+L+ REP+ EWA A R L+
Sbjct: 152 WGNLHHRYLTSQEEIELVELLTPVKHLHQVRSELRRVLRREPSDDEWATAANTDFRTLRR 211
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQYQ--GRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
L G +++ KLI N RLV+ +A++Y+ SL DL QEG GL+ +++ F P G
Sbjct: 212 RLQLGEAAQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLIDAMDHFNPGKGT 271
Query: 380 RFANTGV 386
RF+ +
Sbjct: 272 RFSTYAI 278
Score = 48.9 bits (115), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKER 444
E DI + +R+ + L L KER +++ R+G+EDG KSL EVG +S+E
Sbjct: 371 ETGDIVSESSEVREEIVTALQRLKDKERMVLQHRYGLEDGAIAVKSLREVGRRLNMSQEM 430
Query: 445 VRQLESRALYRLKQ 458
VR+ E+ AL RL+
Sbjct: 431 VRRYEASALERLRH 444
>gi|37523928|ref|NP_927305.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421]
gi|35214934|dbj|BAC92300.1| group2 RNA polymerase sigma factor [Gloeobacter violaceus PCC 7421]
Length = 344
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 44/114 (38%), Positives = 68/114 (59%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
+T +EE L +IQ + ++ + +L + GR + A +G + L G +
Sbjct: 47 VTPEEEIHLARRIQAKLAIDGAREELAMRLGRPSPEEDVAAFMGRDPKALIEATRQGLWA 106
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ KLINANLRLVV +AK+Y GR + DL+QEG++GLM++ EKF P+ G RF+
Sbjct: 107 QRKLINANLRLVVSIAKKYIGRNVPFLDLIQEGNIGLMRATEKFDPEKGYRFST 160
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 39/54 (72%)
Query: 406 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+ +L P ER ++ LRFG++ + +L EVG F L++ER+RQ+ES AL +L++S
Sbjct: 279 MNVLKPVEREVLALRFGLKGEEGLTLREVGERFDLTRERIRQIESEALRKLRRS 332
>gi|254527154|ref|ZP_05139206.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
gi|221538578|gb|EEE41031.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9202]
Length = 313
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L + T
Sbjct: 17 NDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMIL-TEDGQLNEKINEFTT--------- 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 ----QQKRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + L+ L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|78185087|ref|YP_377522.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9902]
gi|116072338|ref|ZP_01469605.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
gi|78169381|gb|ABB26478.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9902]
gi|116064860|gb|EAU70619.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. BL107]
Length = 313
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 50/134 (37%), Positives = 74/134 (55%), Gaps = 22/134 (16%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLTA EE EL Q+Q ++ ++ SK
Sbjct: 17 SDPVSWYLSTIGRIPLLTAAEEIELGNQVQAMMAFTEDGSK------------------D 58
Query: 314 LSCRDLKSE----LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
DL ++ L G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++
Sbjct: 59 FKVEDLTTKQRRMLRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERA 118
Query: 370 VEKFKPQAGCRFAN 383
VEKF P G +F+
Sbjct: 119 VEKFDPTRGYKFST 132
Score = 51.6 bits (122), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 53/80 (66%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ + P V++++ + + L+ L+ +E+ ++RLRFG+E + +L+E+G +
Sbjct: 224 GDLIADSSADEPLDIVEQRIHHEQLGRWLSHLSEQEQNVLRLRFGLEGNERHTLAEIGRM 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 MEVSRERVRQVELKALRKLR 303
>gi|302851352|ref|XP_002957200.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f.
nagariensis]
gi|300257450|gb|EFJ41698.1| hypothetical protein VOLCADRAFT_109400 [Volvox carteri f.
nagariensis]
Length = 733
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 44/130 (33%), Positives = 67/130 (51%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
ND FL +L+ + E E+ QD + LEK K + + R+PT E A A+G
Sbjct: 399 NDGTDHFLHSSANVNILSPEAELEVTEMCQDFLFLEKVKRQCEKTLHRKPTNDECAAAVG 458
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +G ++E L+ +N RLV+ V K+Y G+G+ L DL+ EG GL++ VE +
Sbjct: 459 MDVMAYNMRYDAGLKAKELLLKSNYRLVMTVCKRYIGKGMHLQDLVSEGVKGLLRGVEMY 518
Query: 374 KPQAGCRFAN 383
G RF
Sbjct: 519 DASRGFRFGT 528
Score = 72.4 bits (176), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 50/181 (27%), Positives = 88/181 (48%), Gaps = 38/181 (20%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL--SCRDLKSELHSGNSSREKLINA 336
+ I+ L +L+ + L + REP++ E A+A+GL S +L + SS E I
Sbjct: 553 VHMIEQLTKLKNATAALAMELNREPSVEEMAEAVGLPPSRVELLLDAARAASSMESAIGG 612
Query: 337 NLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQ 396
+ G+++ D +Q+ M D +
Sbjct: 613 D-------------DGLTIKDAVQDERMA-----------------------ADEAFGSD 636
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
MR V ++L L+ +E C++RLRFG+EDG +L ++G+ G+++ER+RQLE++AL +L
Sbjct: 637 SMRADVESMLEGLSDREACVLRLRFGLEDGVEWTLEDIGSRLGVTRERIRQLEAKALRKL 696
Query: 457 K 457
+
Sbjct: 697 Q 697
>gi|254421571|ref|ZP_05035289.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
gi|196189060|gb|EDX84024.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
Length = 390
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 6/136 (4%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL----EKEKSKLQSQFGREPTL--IE 307
D +R +L LL+ ++E L Q+Q ++ L E+ +KL G E + +
Sbjct: 73 TDAVRSYLHEIGRVPLLSHEDEIVLGKQVQKMMALLAIKEELAAKLSEAEGEEAEVSNAD 132
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA A + +L + G S+ K+I ANLRLVV VAK+YQ R + DL+QEG++GL
Sbjct: 133 WAAAASIPESELDHHMRRGQRSKRKMIEANLRLVVAVAKKYQKRNLEFLDLIQEGTLGLE 192
Query: 368 KSVEKFKPQAGCRFAN 383
+ VEKF P G +F+
Sbjct: 193 RGVEKFDPMKGYKFST 208
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/88 (39%), Positives = 54/88 (61%), Gaps = 4/88 (4%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+ G D +VQ+ L R + +L+ L +++ ++ LRFG+ DG P SL++VG G+S+
Sbjct: 304 DDGASPEDYTVQQSL-RSDIFRMLSELTSQQQEVINLRFGLADGNPLSLAKVGQRMGISR 362
Query: 443 ERVRQLESRALYRL---KQSLGGKASYG 467
ERVRQLE +AL L K S+ G + G
Sbjct: 363 ERVRQLEQQALKHLRRRKASINGYLAAG 390
>gi|409993030|ref|ZP_11276188.1| RNA polymerase sigma factor SigC [Arthrospira platensis str.
Paraca]
gi|409936091|gb|EKN77597.1| RNA polymerase sigma factor SigC [Arthrospira platensis str.
Paraca]
Length = 409
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 38/76 (50%), Positives = 52/76 (68%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ LS +LK G +++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 149 WAELANLSVEELKQVQREGIQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 208
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 209 RAVEKFDPTRGYRFST 224
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 52/70 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ + + ++++L L+ KER ++++R+G+ DG P SL+E+G LS+ERVRQ+
Sbjct: 325 PEELLMRESLYRELQHILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQI 384
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 385 EAKALQKLRQ 394
>gi|302802267|ref|XP_002982889.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii]
gi|302818650|ref|XP_002990998.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii]
gi|300141329|gb|EFJ08042.1| hypothetical protein SELMODRAFT_132663 [Selaginella moellendorffii]
gi|300149479|gb|EFJ16134.1| hypothetical protein SELMODRAFT_117159 [Selaginella moellendorffii]
Length = 292
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 49/166 (29%), Positives = 91/166 (54%), Gaps = 3/166 (1%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
Q+ I++E + + Q GREPT EWA+A+ + ++L+ +L R ++++NL LV+
Sbjct: 1 QEHIKMEALFTSMSEQLGREPTFREWAEALKIEPQELRRKLKHAKRCRTNMVSSNLGLVI 60
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
VA+++ +G ++ DL+QEG GL+ VEKF G R + + ++SV++ +++ +
Sbjct: 61 KVARKFGLKGTTIEDLIQEGINGLLHGVEKFDTSRGFRLSTYVLWWIELSVRRASVKRSI 120
Query: 403 RNL--LTLLNPKERCI-VRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+ L + R + R R E G + EV I G + ++V
Sbjct: 121 MCQVPMHLFDTHTRVLKTRARIFEERGTFPTNEEVATILGTTAQKV 166
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 55/78 (70%), Gaps = 1/78 (1%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
VE + +K L+++ + +L LL P+E+ ++ LR+GI DG+ ++L E+ + F LS+ERV
Sbjct: 200 VESSLLVAEKALLKEQLDKVLNLLKPREKEVLTLRYGIGDGRDRTLEELSHHFNLSRERV 259
Query: 446 RQLESRALYRLKQSLGGK 463
RQ+E RAL ++ + LGGK
Sbjct: 260 RQIEKRALAKIHE-LGGK 276
>gi|358463522|ref|ZP_09173562.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357070106|gb|EHI79876.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 392
Score = 82.4 bits (202), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 59/200 (29%), Positives = 108/200 (54%), Gaps = 18/200 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + A+ +
Sbjct: 93 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFAAEK--LSEARRVT 138
Query: 314 LSCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
++ R DL++ GN ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEK
Sbjct: 139 VALRVDLEAVERDGNVAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEK 198
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--HVRNLLTLLNPKERCIVRLRFGIED-GKPK 429
F G +F+ ++ + + Q +R + ++ + I R ++D G+
Sbjct: 199 FDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREP 258
Query: 430 SLSEVGNIFGLSKERVRQLE 449
+ E+G L+ ++VR+++
Sbjct: 259 TPEEIGKEMDLTPDKVREIQ 278
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T +P + L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG
Sbjct: 300 GDFIEDTDAVVPVDAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGRE 359
Query: 438 FGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 360 FGVTRERIRQIESKTLSKLR 379
>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 = 82.4 bits (202), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P + EW K L+ G ++EK++
Sbjct: 127 RIIAEKSEKEPKLSDIKAYLGKTELTAPMVEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|123969020|ref|YP_001009878.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. AS9601]
gi|123199130|gb|ABM70771.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. AS9601]
Length = 313
Score = 82.4 bits (202), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L + T
Sbjct: 17 NDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMIL-TEDGQLNEKVNEFTT--------- 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 ----QQKRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + L+ L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|209525810|ref|ZP_03274346.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|423064796|ref|ZP_17053586.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
gi|209493783|gb|EDZ94102.1| RNA polymerase, sigma 70 subunit, RpoD family [Arthrospira maxima
CS-328]
gi|406714039|gb|EKD09207.1| RNA polymerase sigma 70 subunit RpoD family [Arthrospira platensis
C1]
Length = 407
Score = 82.4 bits (202), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 38/76 (50%), Positives = 52/76 (68%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ LS +LK G +++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 147 WAELANLSVEELKQVQREGLQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 206
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 207 RAVEKFDPTRGYRFST 222
Score = 66.2 bits (160), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 52/70 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ + + ++NLL L+ KER ++++R+G+ DG P SL+E+G LS+ERVRQ+
Sbjct: 323 PEELLMRESLYRELQNLLADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQI 382
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 383 EAKALQKLRQ 392
>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 = 82.4 bits (202), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFRLYTDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P + EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLVEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|352096241|ref|ZP_08957121.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
gi|351676935|gb|EHA60086.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Synechococcus sp.
WH 8016]
Length = 313
Score = 82.0 bits (201), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLTA EE EL Q+Q + L ++ S A +
Sbjct: 17 SDPISWYLATIGRIPLLTAAEEIELGNQVQKFMELTQDGSVS-------------ADSEE 63
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S +D + + G ++++++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 64 FSSKD-RRMIRVGQRAKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 47.4 bits (111), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 51/80 (63%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ + + L+ L+ +E+ ++ LRFG+ + +L+++G +
Sbjct: 224 GDLIADSSAEEPLDKVEQRIHHEQLGRWLSHLSEQEQHVLTLRFGLNGNERHTLAQIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E ++L +L+
Sbjct: 284 LDVSRERVRQVELKSLRKLR 303
>gi|157413850|ref|YP_001484716.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9215]
gi|157388425|gb|ABV51130.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9215]
Length = 313
Score = 82.0 bits (201), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L + T
Sbjct: 17 NDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMIL-TEDGQLNEKIKEFTT--------- 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 ----QQKRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + L+ L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|423350097|ref|ZP_17327750.1| RNA polymerase sigma factor sigB [Turicella otitidis ATCC 51513]
gi|404387959|gb|EJZ83050.1| RNA polymerase sigma factor sigB [Turicella otitidis ATCC 51513]
Length = 329
Score = 82.0 bits (201), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 52/128 (40%), Positives = 73/128 (57%), Gaps = 12/128 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTAD+E EL QI+ + E + R AK
Sbjct: 30 DLVRVYLNGIGKTDLLTADDEVELAKQIEVGLYAEHVLADHDEPLTR-------AKK--- 79
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 80 --RDLKVLARQGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFA 382
Q G +F+
Sbjct: 138 YQKGFKFS 145
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 47/70 (67%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
++SV L + ++L L+ +E+ ++ LR+G+ DG P++L ++G FGLS+ERVRQ+E
Sbjct: 249 ELSVVATLRHDDIHDVLGSLDQREQDVITLRYGLNDGVPRTLDQIGRKFGLSRERVRQIE 308
Query: 450 SRALYRLKQS 459
+ +L++
Sbjct: 309 REVMKKLREG 318
>gi|291566491|dbj|BAI88763.1| group 2 RNA polymerase sigma factor SigC [Arthrospira platensis
NIES-39]
Length = 385
Score = 82.0 bits (201), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 38/76 (50%), Positives = 52/76 (68%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ LS +LK G +++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 125 WAELANLSVEELKQVQREGIQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 184
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 185 RAVEKFDPTRGYRFST 200
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 52/70 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ + + ++++L L+ KER ++++R+G+ DG P SL+E+G LS+ERVRQ+
Sbjct: 301 PEELLMRESLYRELQHILADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQI 360
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 361 EAKALQKLRQ 370
>gi|156975281|ref|YP_001446188.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116]
gi|156526875|gb|ABU71961.1| hypothetical protein VIBHAR_03010 [Vibrio harveyi ATCC BAA-1116]
Length = 287
Score = 82.0 bits (201), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 34/72 (47%), Positives = 55/72 (76%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+R ++IN+NLRLVV++AK+Y+GRG++ DL+ EG++GLM++VEKF P+ G RF+
Sbjct: 50 ARTRMINSNLRLVVNIAKRYKGRGLTFLDLISEGNIGLMRAVEKFDPEKGFRFSTYATHW 109
Query: 389 PDISVQKQLMRQ 400
S++++LM Q
Sbjct: 110 IRQSIERELMNQ 121
Score = 38.9 bits (89), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 29/49 (59%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L P + I+ R+G++ P SL VG G S+ER+R L+ + + +L+
Sbjct: 225 LEPDLKLILTRRYGLDGNTPTSLDTVGTELGYSRERIRHLQMQGIKKLQ 273
>gi|21449377|gb|AAM54109.1|AF453501_35 RNA polymerase sigma factor [Actinosynnema pretiosum subsp.
auranticum]
Length = 348
Score = 82.0 bits (201), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 70/267 (26%), Positives = 129/267 (48%), Gaps = 33/267 (12%)
Query: 221 KKRKVSKPQVTNHETYNS----RKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF 276
++R V VT T+ + + A+ ++ +E + D R +L +LLTAD+E
Sbjct: 11 RRRPVRWWGVTEAFTWETDEDIKLAATLRRDAEAANAADSTRAYLKAIGRVRLLTADQEV 70
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EL +++ + E + G R P +L+ + G +++ L+
Sbjct: 71 ELARRVEAGLYAEHLLDLPPAARGSRRPV-------------ELRRVVRDGQRAKDHLLE 117
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQK 395
ANLRLVV +AK+Y G+G++L D++QEG++GL+++VEKF G +F+ ++ +
Sbjct: 118 ANLRLVVSIAKRYTGKGMALLDVIQEGNLGLVRAVEKFDYAKGFKFSTYATWWIRQAITR 177
Query: 396 QLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
L Q H+ ++T L ER ++ +G+ + EV ++ E+V +
Sbjct: 178 ALADQSRTIRLPVHMVEVVTKLARIERDLLH-----RNGREATAEEVAVELDVTPEKVVE 232
Query: 448 L--ESRALYRLKQSLGGKASYGYADLL 472
L +R L Q++G +A DL+
Sbjct: 233 LRQHARTPVSLDQTIGAEADTSIGDLI 259
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 53/93 (56%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ P +V L+ +R +L L P+E +VR+R+G DG +L EVG +
Sbjct: 256 GDLIADENAVAPLEAVSSALLSADLRAVLETLTPREAGVVRMRYGFPDGVLHTLDEVGRV 315
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
+G+++ER+RQ+ESR + +L+ + GY D
Sbjct: 316 YGVTRERIRQIESRTMAKLQHPARSRGLEGYLD 348
>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 = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 62/199 (31%), Positives = 106/199 (53%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE L +++E + Q E LIE +A
Sbjct: 151 GDPVRMYLKEIGKVDLLTASEEVHL------AMKIEAGTAASQKLEDFEDGLIELNRA-- 202
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G ++++LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 203 -EQRRLMRIESVGLDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 261
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
G +F+ ++ + + Q +R + ++ + I R ++D G+ +
Sbjct: 262 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFGRDPT 321
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G+ G+S +RVR+++
Sbjct: 322 PEEIGSEMGMSPDRVREIQ 340
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/75 (40%), Positives = 52/75 (69%), Gaps = 1/75 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+T V PD + ++R+ + +L L +ER +++ RFG+EDG P++L EVG FG+++
Sbjct: 368 STAVAPPD-AASDSMLREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTR 426
Query: 443 ERVRQLESRALYRLK 457
ER+RQ+ES+ L +L+
Sbjct: 427 ERIRQIESKTLAKLR 441
>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 = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 84/168 (50%), Gaps = 39/168 (23%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P + EW K L+ G ++EK++
Sbjct: 127 KIIAEKSEKEPKLSDIKAYLGKTELMAPLVEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 234
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 327 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 386
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 387 TRERIRQIEAKALRKLRH 404
>gi|126696812|ref|YP_001091698.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9301]
gi|126543855|gb|ABO18097.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9301]
Length = 313
Score = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L + T
Sbjct: 17 NDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMIL-TEDGQLNEKTNEFTT--------- 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 ----QQKRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 50.8 bits (120), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + L+ L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSEQEQHVLKLRFGLDANERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|395236960|ref|ZP_10415090.1| RNA polymerase sigma factor sigB [Turicella otitidis ATCC 51513]
gi|394487844|emb|CCI83178.1| RNA polymerase sigma factor sigB [Turicella otitidis ATCC 51513]
Length = 339
Score = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 73/129 (56%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTAD+E EL QI+ + E + R AK
Sbjct: 40 DLVRVYLNGIGKTDLLTADDEVELAKQIEVGLYAEHVLADHDEPLTR-------AKK--- 89
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 90 --RDLKVLARQGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 147
Query: 375 PQAGCRFAN 383
Q G +F+
Sbjct: 148 YQKGFKFST 156
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 47/70 (67%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
++SV L + ++L L+ +E+ ++ LR+G+ DG P++L ++G FGLS+ERVRQ+E
Sbjct: 259 ELSVVATLRHDDIHDVLGSLDQREQDVITLRYGLNDGVPRTLDQIGRKFGLSRERVRQIE 318
Query: 450 SRALYRLKQS 459
+ +L++
Sbjct: 319 REVMKKLREG 328
>gi|383763158|ref|YP_005442140.1| RNA polymerase sigma factor SigA [Caldilinea aerophila DSM 14535 =
NBRC 104270]
gi|381383426|dbj|BAM00243.1| RNA polymerase sigma factor SigA [Caldilinea aerophila DSM 14535 =
NBRC 104270]
Length = 441
Score = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 53/132 (40%), Positives = 79/132 (59%), Gaps = 10/132 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG--REPTLIEWAKAI 312
DP+R++L LLTA+EE EL +I+ + EK KLQ FG E L +
Sbjct: 105 DPVRMYLRDIGRHPLLTAEEEMELAEKIRLGVEAEK---KLQELFGGRSEDELTDEE--- 158
Query: 313 GLSCRD-LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
L +D L+ +H G + +L +NLRLVV VAK+Y GRG++ DL+QEG++GL+++V+
Sbjct: 159 -LDQKDELEMLVHQGRMAHSRLAQSNLRLVVSVAKRYIGRGLNFLDLIQEGNLGLLRAVD 217
Query: 372 KFKPQAGCRFAN 383
KF G +F+
Sbjct: 218 KFDHTLGFKFST 229
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 51/193 (26%), Positives = 101/193 (52%), Gaps = 10/193 (5%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG-LSCRDLKSELHSGNSSREKLINAN 337
+ ++ + R + + +LQ + GREPT E A + LS D K + ++ K ++ +
Sbjct: 254 VHMVETINRQTRVQRRLQQELGREPTYEEIAIEMDFLSPEDAKR--YKEAIAKGKRLDPD 311
Query: 338 LRLVVH--VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQK 395
L+ V AK + + +S L E +G ++ G + + P S +
Sbjct: 312 LQRQVERAAAKVRRIQRLSQEPLSLETPVGSEEN-----SYLGDFIEDDSLPGPADSASR 366
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++++ + +L L+ +ER ++ +RFG+EDG ++L +VG F +++ERVRQ+E++AL +
Sbjct: 367 RMLKEQMEEILDNLSERERKVLVMRFGLEDGVTRTLEDVGKEFNVTRERVRQIEAKALRK 426
Query: 456 LKQSLGGKASYGY 468
L+ L + Y
Sbjct: 427 LRHPLRSRKLRDY 439
>gi|443329181|ref|ZP_21057769.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
gi|442791126|gb|ELS00625.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Xenococcus sp. PCC 7305]
Length = 417
Score = 81.6 bits (200), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 37/76 (48%), Positives = 51/76 (67%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ G +L+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 157 WAQVTGCEVNELEKIQKDGIRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 216
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 217 RAVEKFDPTKGYRFST 232
Score = 58.2 bits (139), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 51/70 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ ++ ++ +++ ++ LL+ L +ER ++++RFG KP SL+E+G LS+ERVRQ+
Sbjct: 333 PEETLMRESLQRDLQLLLSELTSREREVIQMRFGFGGEKPFSLAEIGRCLELSRERVRQI 392
Query: 449 ESRALYRLKQ 458
E++AL +L+Q
Sbjct: 393 EAKALQKLRQ 402
>gi|194699556|gb|ACF83862.1| unknown [Zea mays]
gi|223944677|gb|ACN26422.1| unknown [Zea mays]
gi|413917282|gb|AFW57214.1| RNA polymerase sigma factor 1 isoform 1 [Zea mays]
gi|413917283|gb|AFW57215.1| RNA polymerase sigma factor 1 isoform 2 [Zea mays]
gi|413917284|gb|AFW57216.1| RNA polymerase sigma factor 1 isoform 3 [Zea mays]
Length = 496
Score = 81.6 bits (200), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 77/126 (61%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +
Sbjct: 182 RIYLRGTVSKDLLTHKQVVQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRIPAP 241
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 242 ELRARMRESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASR 301
Query: 378 GCRFAN 383
G R +
Sbjct: 302 GFRIST 307
Score = 39.7 bits (91), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 45/73 (61%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P +++ +++ V +L+ + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 413 PWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 470
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 471 QVGLVAMEKLKHA 483
>gi|421739056|ref|ZP_16177384.1| RNA polymerase sigma factor, sigma-70 family [Streptomyces sp. SM8]
gi|406692448|gb|EKC96141.1| RNA polymerase sigma factor, sigma-70 family [Streptomyces sp. SM8]
Length = 357
Score = 81.6 bits (200), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 55/167 (32%), Positives = 90/167 (53%), Gaps = 15/167 (8%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 107 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 166
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGK 427
G +F+ ++ + L Q HV L+ + +R +++ E G+
Sbjct: 167 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQ-----EAGR 221
Query: 428 PKSLSEVGNIFGLSKERVRQL--ESRALYRLKQSLGGKASYGYADLL 472
+ EVG GLS E+V ++ +R L +GG+ DL+
Sbjct: 222 EPAAEEVGERLGLSAEKVEEVLRLAREPISLHAPVGGEDDVFLGDLI 268
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 52/72 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL
Sbjct: 284 LLRQHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRL 343
Query: 457 KQSLGGKASYGY 468
++ GY
Sbjct: 344 REHTAAGQLRGY 355
>gi|427702480|ref|YP_007045702.1| sigma-70 family RNA polymerase sigma factor [Cyanobium gracile PCC
6307]
gi|427345648|gb|AFY28361.1| RNA polymerase sigma factor, sigma-70 family [Cyanobium gracile PCC
6307]
Length = 310
Score = 81.3 bits (199), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 52/137 (37%), Positives = 76/137 (55%), Gaps = 21/137 (15%)
Query: 249 EGFDR--NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
EG R +D + +L LLT EE EL Q+Q ++ L +E
Sbjct: 11 EGSTRRGSDSITWYLTSIGREPLLTPAEEIELGNQVQAMMHLVEESKT------------ 58
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
G S ++ K+ + G S+E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL
Sbjct: 59 ------GYSVQENKT-IKVGRRSKERMMRANLRLVVSVAKKYQGKGLELLDLIQEGSLGL 111
Query: 367 MKSVEKFKPQAGCRFAN 383
++VEKF P G +F+
Sbjct: 112 ERAVEKFDPTRGYKFST 128
Score = 47.4 bits (111), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 50/80 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ E P +++ + ++ + L+ L+ +E+ ++ LRFG++ + +L+E+G
Sbjct: 220 GDLIADGSAEEPLDRIERGMHQEQLAELMGHLSAQEKEVLALRFGLDGMERHTLAEIGRQ 279
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 280 LDVSRERVRQIELKALRKLR 299
>gi|33861845|ref|NP_893406.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
gi|33640213|emb|CAE19748.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus subsp. pastoris str. CCMP1986]
Length = 313
Score = 81.3 bits (199), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 74/130 (56%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L K
Sbjct: 17 NDPISWYLSNIGRVPLLTPAEEIELGNQVQKMMVL-TEDGQLNE------------KTKE 63
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +D K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 64 FTPQD-KRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + L+ L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLSHLSEQEQHVLKLRFGLDGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|256377300|ref|YP_003100960.1| RpoD subfamily RNA polymerase sigma-70 subunit [Actinosynnema mirum
DSM 43827]
gi|255921603|gb|ACU37114.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Actinosynnema
mirum DSM 43827]
Length = 349
Score = 81.3 bits (199), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 65/243 (26%), Positives = 119/243 (48%), Gaps = 29/243 (11%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A+ ++ +E + D R +L +LLTAD+E EL +++ + E + G
Sbjct: 36 AATLRRDAEAANAADSTRAYLKAIGRVRLLTADQEVELARRVEAGLYAEHLLDLPPAARG 95
Query: 301 -REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
R P +L+ + G +++ L+ ANLRLVV +AK+Y G+G++L D++
Sbjct: 96 SRRPI-------------ELRRVVRDGQRAKDHLLEANLRLVVSIAKRYTGKGMALLDVI 142
Query: 360 QEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNP 411
QEG++GL+++VEKF G +F+ ++ + L Q H+ ++T L
Sbjct: 143 QEGNLGLVRAVEKFDYAKGFKFSTYATWWIRQAITRALADQSRTIRLPVHMVEVVTKLAR 202
Query: 412 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL--ESRALYRLKQSLGGKASYGYA 469
ER ++ +G+ + EV ++ E+V +L +R L Q++G +A
Sbjct: 203 VERDLLH-----RNGREATAEEVAVELDVTPEKVVELRQHARTPVSLDQTIGAEADTSIG 257
Query: 470 DLL 472
DL+
Sbjct: 258 DLI 260
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 53/93 (56%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ P +V L+ +R +L L P+E +VR+R+G DG +L EVG +
Sbjct: 257 GDLIADENAVAPLEAVSSALLSADLRAVLDTLTPREAGVVRMRYGFPDGVLHTLEEVGRV 316
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
+G+++ER+RQ+ESR + +L+ + GY D
Sbjct: 317 YGVTRERIRQIESRTMAKLQHPARSRGLEGYLD 349
>gi|148240072|ref|YP_001225459.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH
7803]
gi|147848611|emb|CAK24162.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 313
Score = 81.3 bits (199), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 51/133 (38%), Positives = 76/133 (57%), Gaps = 20/133 (15%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKL--QSQF-GREPTLIEWAK 310
+DP+ +L LLT EE EL Q+Q L++L ++ S QF G++ LI
Sbjct: 17 SDPISWYLATIGRIPLLTPAEEIELGNQVQQLMQLTEDGSIAADSDQFDGKQRRLI---- 72
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++++++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++V
Sbjct: 73 -------------RVGQRAKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAV 119
Query: 371 EKFKPQAGCRFAN 383
EKF P G +F+
Sbjct: 120 EKFDPTRGYKFST 132
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ +E P V++++ + + ++ L+ +E+ ++ LRFG+ + +L+E+G +
Sbjct: 224 GDLIADSSLEEPLDRVEQRMHHEQLGRWMSHLSDQEQHVLTLRFGLNGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LDVSRERVRQVELKALRKLR 303
>gi|159896548|ref|YP_001542795.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159889587|gb|ABX02667.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 400
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 68/208 (32%), Positives = 105/208 (50%), Gaps = 23/208 (11%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
+EG ND +RL+L LL ++E EL ++D + ++E LIE
Sbjct: 94 NEGISVNDTVRLYLREIGLVPLLKGEQEVELARAMEDGDKAQQE-------------LIE 140
Query: 308 WAKAIGLSCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+ R L+ + G +RE L ANLRLVV VAK+Y GRG+SL DL+QEG++GL
Sbjct: 141 NDHTLSDVERLALRRRIDRGEQAREHLTTANLRLVVSVAKKYIGRGLSLLDLIQEGNVGL 200
Query: 367 MKSVEKFKPQAGCRFANTGV------EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 420
+++VEKF G +F+ I+ Q + +R V +++ +N R RL
Sbjct: 201 IRAVEKFNYTKGFKFSTYATWWIRQAITRAIADQARTIRIPV-HMVETINRMMRTARRL- 258
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERVRQL 448
E+G+ S E+ L+ E+VR +
Sbjct: 259 -TQENGREPSDEELAQALDLTVEKVRSI 285
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 57/93 (61%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +E P + Q++R+ V +L L +E+ +++LRFG+EDG ++L EVG
Sbjct: 306 QLGDFLPDEKLEAPSDAASHQMLREQVAQVLDQLTEREKRVLKLRFGLEDGTQRTLEEVG 365
Query: 436 NIFGLSKERVRQLESRALYRLKQSLGGKASYGY 468
FG+++ER+RQ+E +AL +L+ GK Y
Sbjct: 366 KEFGVTRERIRQIEVKALRKLRHPRFGKKLRDY 398
>gi|225377779|ref|ZP_03755000.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM
16841]
gi|225210363|gb|EEG92717.1| hypothetical protein ROSEINA2194_03430 [Roseburia inulinivorans DSM
16841]
Length = 426
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 48/135 (35%), Positives = 83/135 (61%), Gaps = 2/135 (1%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G DP+R++L LL+A+EE EL ++ +++ + L+S+ E E
Sbjct: 111 DGVSIEDPVRMYLKEIGKVPLLSAEEEIELAKNMEAGAVAKEKIAILKSR--EEKATEEE 168
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
I ++L+ +L +G+ ++++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+K
Sbjct: 169 LAEIKEEIKNLQKDLDAGDEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 228
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF + G +F+
Sbjct: 229 AVEKFDYRKGYKFST 243
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + V +P + L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG
Sbjct: 334 GDFIQDDNVPVPADAAAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKE 393
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 394 FNVTRERIRQIEAKALRKLR 413
>gi|113954655|ref|YP_729975.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
gi|113882006|gb|ABI46964.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. CC9311]
Length = 313
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLTA EE EL Q+Q + L ++ S P E+
Sbjct: 17 SDPISWYLATIGRIPLLTAAEEIELGNQVQKFMELTQDGSV-------SPDSEEF----- 64
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S +D + + G ++++++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 65 -SSKD-RRMIRVGQRAKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 47.0 bits (110), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 51/80 (63%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ + + L+ L+ +E+ ++ LRFG+ + +L+++G +
Sbjct: 224 GDLIADSSAEEPLDKVEQRIHHEQLGRWLSHLSEQEQHVLTLRFGLNGNERHTLAQIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E ++L +L+
Sbjct: 284 LDVSRERVRQVELKSLRKLR 303
>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 = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/207 (28%), Positives = 98/207 (47%), Gaps = 53/207 (25%)
Query: 225 VSKPQVTNHETYNSRK--ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQI 282
++P N + SR+ S KK +E D +R++L +LL A+EE EL +I
Sbjct: 37 TTEPDGKNRKISASRRRDTSKKKPYTE-----DSIRVYLQEIGRIRLLRAEEEIELARKI 91
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAI-----------GLSCRD------------- 318
DL++LE+ + L + + P +WAK I S ++
Sbjct: 92 ADLLQLERIREALWEELDQVPNDEQWAKRIFQWENIEQIIRTQSSKEKEPKWSEVTSLLQ 151
Query: 319 ----------------------LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
K L+ G +++K++++NLRLVV +AK+Y RG+S
Sbjct: 152 EKKTISNLEKIWELEQKSYLPKFKRRLYLGRKAKDKMVHSNLRLVVSIAKKYMNRGLSFQ 211
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEGS+GL+++ EKF + G +F+
Sbjct: 212 DLIQEGSLGLIRAAEKFDHEKGYKFST 238
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 331 FIEADGETPEDEVAKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 390
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 391 TRERIRQIEAKALRKLR 407
>gi|78779769|ref|YP_397881.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9312]
gi|78713268|gb|ABB50445.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9312]
Length = 313
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+ +L LLT EE EL Q+Q ++ L E +L + T
Sbjct: 17 NDPISWYLQNIGRVPLLTPAEEIELGNQVQKMMIL-TEDGQLNEKIKEFTT--------- 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 ----QQKRIIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 79/353 (22%), Positives = 154/353 (43%), Gaps = 86/353 (24%)
Query: 131 PPMKRGEDPSVSLTMQSLSNDTEESVDAEPFDAVALARKALSASKEAASLAENPKLNGAE 190
PP +RG DP +S +Q++ + P + + L + ++ L E+ +LN
Sbjct: 11 PPKRRGNDP-ISWYLQNIGRVPLLT----PAEEIELGNQV----QKMMILTEDGQLN--- 58
Query: 191 FTDISLTSSLGYPLEEVKQFS--QPRFLE--RRSKKRKVS---KPQVTNHETYNSRKASV 243
E++K+F+ Q R ++ RR+K+R + + V+ + Y + +
Sbjct: 59 --------------EKIKEFTTQQKRIIKIGRRAKERMMKANLRLVVSVAKKYQGKGLEL 104
Query: 244 KKKLSEG-------FDRNDPLR-------LFLWGPE--TRKLLTADEEFELIAQIQD-LI 286
+ EG ++ DP R F W + TR + L + + L
Sbjct: 105 LDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIRQSMTRAIACQSRTIRLPVHLSERLA 164
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG--NSSREKLINANLRLVVHV 344
+ K +L + G P+ IE A+A+ + +L S L SS + +N +
Sbjct: 165 AIRKVSRELAHKLGAMPSRIEIAEAMDIDVEELDSVLRQALSTSSLDAPVNGD------- 217
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
GR L DL+ A++ E P V++++ ++ +
Sbjct: 218 ----DGRSF-LGDLI----------------------ADSNTEEPLDKVEQKMHQEQLGK 250
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
L+ L+ +E+ +++LRFG++ + +L+E+G + +S+ERVRQ+E +AL +L+
Sbjct: 251 WLSHLSEQEQHVLKLRFGLDGNERHTLAEIGRLLEVSRERVRQVELKALRKLR 303
>gi|384247274|gb|EIE20761.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coccomyxa subellipsoidea C-169]
Length = 329
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 58/189 (30%), Positives = 93/189 (49%), Gaps = 14/189 (7%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN 327
LLTA EE L +Q LI +E ++++ + GR T EWA G S + + G
Sbjct: 9 LLTAAEEKVLSKAVQRLIAMEAKQTEATQRLGRPITEREWAAECGQSSIHAFRKAVKVGQ 68
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG-- 385
+R +++ +N RLV HVA++Y RG+ DLL EG GL + VEKF G +F+
Sbjct: 69 EARTRMMKSNERLVFHVARRYMNRGLDFQDLLAEGMSGLWRGVEKFDADRGFKFSTYAHW 128
Query: 386 ----VEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
IS Q +++R H+ L+ + V L + E G+ ++ + G
Sbjct: 129 WVRQAITRAISEQGRVVRLPVHLHELMAKVTK-----VDLEYQSEHGRRAGNEKLAELVG 183
Query: 440 LSKERVRQL 448
+S+E++ L
Sbjct: 184 ISQEKLAML 192
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 50/73 (68%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ Q + N+L L+ +E I+R R+G++DG+ ++L EVG IF +++ER+RQ+E++A+ +L+
Sbjct: 238 LHQDMDNVLATLSERESGILRCRYGLDDGRQRTLEEVGQIFKVTRERIRQIEAKAILKLR 297
Query: 458 QSLGGKASYGYAD 470
Q Y Y +
Sbjct: 298 QPDRSSILYDYVN 310
>gi|359145132|ref|ZP_09178962.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein
[Streptomyces sp. S4]
Length = 357
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 55/167 (32%), Positives = 89/167 (53%), Gaps = 15/167 (8%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 107 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 166
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGK 427
G +F+ ++ + L Q HV L+ + +R +++ E G+
Sbjct: 167 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQ-----EAGR 221
Query: 428 PKSLSEVGNIFGLSKERVRQL--ESRALYRLKQSLGGKASYGYADLL 472
EVG GLS E+V ++ +R L +GG+ DL+
Sbjct: 222 EPGAEEVGERLGLSAEKVEEVLRLAREPISLHAPVGGEDDVFLGDLI 268
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 52/72 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL
Sbjct: 284 LLRQHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRL 343
Query: 457 KQSLGGKASYGY 468
++ GY
Sbjct: 344 REHTAAGQLRGY 355
>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 = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 57/201 (28%), Positives = 95/201 (47%), Gaps = 47/201 (23%)
Query: 230 VTNHETYNSRKASVKKKLSEGFDR---NDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+ ET +RK S ++ + D +R++L +LL A+EE EL +I DL+
Sbjct: 32 IVEPETKKTRKISASRRRDPSKKKPYTEDSIRVYLQEIGRIRLLRAEEEIELARKIADLL 91
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAI----GLSCR------------------------- 317
+LE+ + L + +EP +W I + R
Sbjct: 92 QLERIREALWEELDQEPNDDQWGHRIFQWENIEQRLCSQKNKEPKWSDIVAELNKAEIIS 151
Query: 318 DL---------------KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
DL K L+ G +++K++++NLRLVV +AK+Y RG+S DL+QEG
Sbjct: 152 DLEKTWKQQSKAYLPKFKRRLYLGRRAKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEG 211
Query: 363 SMGLMKSVEKFKPQAGCRFAN 383
S+GL+++ EKF + G +F+
Sbjct: 212 SLGLIRAAEKFDHEKGYKFST 232
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 325 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 384
Query: 441 SKERVRQLESRALYRLK 457
++ER+RQ+E++AL +L+
Sbjct: 385 TRERIRQIEAKALRKLR 401
>gi|22298042|ref|NP_681289.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus
BP-1]
gi|22294220|dbj|BAC08051.1| group 2 RNA polymerase sigma factor [Thermosynechococcus elongatus
BP-1]
Length = 375
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 52/156 (33%), Positives = 85/156 (54%), Gaps = 11/156 (7%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
Q GR+ WAKA ++ +L+ G ++ +L+ ANLRLVV++AK+YQ G+ D
Sbjct: 109 QAGRQA----WAKAANITLSELQHIERQGQRAKNQLLQANLRLVVNIAKKYQHHGVEFLD 164
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPK 412
L+QEGS+GL ++VEKF P G RF+ S+ + + Q +R +++ LN
Sbjct: 165 LIQEGSLGLERAVEKFDPTKGFRFSTYAYWWIRQSITRAVASQSRTIRLPIHMVEKLNKI 224
Query: 413 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+R + R + G SL+++ L +VRQ+
Sbjct: 225 KRA--QRRLAAQRGAMPSLADIAQELNLEVSQVRQV 258
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 49/70 (70%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++ +R ++ LL+ L+P+ER ++ LR+G+ + L+EV + GLS+ER+RQ+
Sbjct: 291 PDEVIMRESLRTTLKQLLSDLSPRERQVMELRYGLGEQPALELAEVAVLLGLSRERIRQI 350
Query: 449 ESRALYRLKQ 458
E RAL +L+Q
Sbjct: 351 EHRALQKLRQ 360
>gi|419716788|ref|ZP_14244183.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M94]
gi|420864424|ref|ZP_15327814.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0303]
gi|420869215|ref|ZP_15332597.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RA]
gi|420873659|ref|ZP_15337036.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RB]
gi|420987323|ref|ZP_15450479.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0206]
gi|421039706|ref|ZP_15502715.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-R]
gi|421044014|ref|ZP_15507015.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-S]
gi|382940349|gb|EIC64673.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M94]
gi|392068685|gb|EIT94532.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RA]
gi|392071399|gb|EIT97245.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0303]
gi|392072687|gb|EIT98528.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0726-RB]
gi|392181602|gb|EIV07253.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0206]
gi|392224798|gb|EIV50317.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-R]
gi|392237866|gb|EIV63360.1| RNA polymerase sigma factor [Mycobacterium abscessus 4S-0116-S]
Length = 323
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 52/141 (36%), Positives = 82/141 (58%), Gaps = 19/141 (13%)
Query: 248 SEGFDRNDP----LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
SE D P +R++L G LLTA++E EL +I+ + L +Q
Sbjct: 14 SEDLDAQSPAADLVRVYLNGIGKTALLTAEDEVELAKRIE---------AGLYAQH---- 60
Query: 304 TLIEWAKAIGLS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
L++ K +G + +DL + GN++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG
Sbjct: 61 -LLDTKKRLGEARKKDLAVIVREGNAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEG 119
Query: 363 SMGLMKSVEKFKPQAGCRFAN 383
++GL++++EKF G +F+
Sbjct: 120 NLGLIRAMEKFDYAKGFKFST 140
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ VR++L L+ +E+ ++RLR+G++DG+ ++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAELLHSDVRSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQIERE 304
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 305 VMAKLRHG 312
>gi|357389445|ref|YP_004904284.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054]
gi|311895920|dbj|BAJ28328.1| putative RNA polymerase sigma factor [Kitasatospora setae KM-6054]
Length = 389
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 67/201 (33%), Positives = 109/201 (54%), Gaps = 18/201 (8%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D LR +L +LLTA EE EL I+ + E+ ++ R P + +G
Sbjct: 85 DLLRQYLREIGRVRLLTAVEEVELARAIEAGLFAEEALDRVPPAAERRPA---DERLLG- 140
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
DL + G ++ +LI ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 141 ---DLDRLVVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTLLDLIQEGNVGLIRAVEKFD 197
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGI--EDGK 427
G +F+ ++ + L Q +R +++ L+N ++R++ G+ E G
Sbjct: 198 YARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELIN----RVLRVQRGLLQERGV 253
Query: 428 PKSLSEVGNIFGLSKERVRQL 448
+ +EVG + L ERVR++
Sbjct: 254 EPTAAEVGAVLQLPPERVREV 274
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L L +ER +V+LR+G++DG+P++L E+G++FG+++ER+RQ+E++ L +L
Sbjct: 316 LLREHLEAVLATLGERERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIRQIEAKTLGKL 375
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 376 RDHAFADQLRGYLD 389
>gi|169630111|ref|YP_001703760.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus ATCC
19977]
gi|365870954|ref|ZP_09410495.1| RNA polymerase sigma factor SigB [Mycobacterium massiliense CCUG
48898 = JCM 15300]
gi|397679875|ref|YP_006521410.1| RNA polymerase sigma factor sigB [Mycobacterium massiliense str. GO
06]
gi|414582578|ref|ZP_11439718.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1215]
gi|418247832|ref|ZP_12874218.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus 47J26]
gi|418421133|ref|ZP_12994309.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus subsp.
bolletii BD]
gi|419709733|ref|ZP_14237201.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M93]
gi|420881197|ref|ZP_15344564.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0304]
gi|420884840|ref|ZP_15348200.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0421]
gi|420889538|ref|ZP_15352886.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0422]
gi|420897176|ref|ZP_15360515.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0708]
gi|420899659|ref|ZP_15362991.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0817]
gi|420905543|ref|ZP_15368861.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1212]
gi|420910637|ref|ZP_15373949.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-R]
gi|420917089|ref|ZP_15380393.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-S]
gi|420922254|ref|ZP_15385551.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-S]
gi|420927916|ref|ZP_15391198.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-1108]
gi|420932132|ref|ZP_15395407.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-151-0930]
gi|420938383|ref|ZP_15401652.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-152-0914]
gi|420942390|ref|ZP_15405647.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-153-0915]
gi|420946950|ref|ZP_15410200.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-154-0310]
gi|420952649|ref|ZP_15415893.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0626]
gi|420956818|ref|ZP_15420055.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0107]
gi|420961864|ref|ZP_15425089.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-1231]
gi|420967525|ref|ZP_15430729.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0810-R]
gi|420972741|ref|ZP_15435934.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0921]
gi|420978256|ref|ZP_15441434.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0212]
gi|420983641|ref|ZP_15446808.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-R]
gi|420992777|ref|ZP_15455924.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0307]
gi|420998629|ref|ZP_15461766.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-R]
gi|421003066|ref|ZP_15466190.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-S]
gi|421007918|ref|ZP_15471029.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0119-R]
gi|421013609|ref|ZP_15476690.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-R]
gi|421018559|ref|ZP_15481617.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-S]
gi|421024676|ref|ZP_15487720.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0731]
gi|421029721|ref|ZP_15492753.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-R]
gi|421035126|ref|ZP_15498146.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-S]
gi|421050031|ref|ZP_15513025.1| RNA polymerase sigma factor [Mycobacterium massiliense CCUG 48898 =
JCM 15300]
gi|169242078|emb|CAM63106.1| RNA polymerase sigma factor [Mycobacterium abscessus]
gi|353452325|gb|EHC00719.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus 47J26]
gi|363994757|gb|EHM15975.1| RNA polymerase sigma factor SigB [Mycobacterium massiliense CCUG
48898 = JCM 15300]
gi|363997600|gb|EHM18811.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus subsp.
bolletii BD]
gi|382943614|gb|EIC67928.1| RNA polymerase sigma factor SigB [Mycobacterium abscessus M93]
gi|392080603|gb|EIU06429.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0421]
gi|392086106|gb|EIU11931.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0304]
gi|392087286|gb|EIU13108.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0422]
gi|392096488|gb|EIU22283.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0708]
gi|392101006|gb|EIU26797.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0817]
gi|392103447|gb|EIU29233.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1212]
gi|392112631|gb|EIU38400.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-R]
gi|392117730|gb|EIU43498.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-1215]
gi|392121229|gb|EIU46995.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0125-S]
gi|392132090|gb|EIU57836.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-S]
gi|392135149|gb|EIU60890.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-1108]
gi|392136891|gb|EIU62628.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-151-0930]
gi|392143898|gb|EIU69623.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-152-0914]
gi|392149817|gb|EIU75531.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-153-0915]
gi|392153980|gb|EIU79686.1| RNA polymerase sigma factor [Mycobacterium massiliense 1S-154-0310]
gi|392157961|gb|EIU83658.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0626]
gi|392165633|gb|EIU91319.1| RNA polymerase sigma factor [Mycobacterium abscessus 5S-0921]
gi|392166530|gb|EIU92215.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0212]
gi|392168637|gb|EIU94315.1| RNA polymerase sigma factor [Mycobacterium abscessus 6G-0728-R]
gi|392185561|gb|EIV11210.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0307]
gi|392186441|gb|EIV12088.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-R]
gi|392194524|gb|EIV20144.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0912-S]
gi|392199371|gb|EIV24981.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0119-R]
gi|392201957|gb|EIV27555.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-R]
gi|392208434|gb|EIV34008.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0122-S]
gi|392211473|gb|EIV37039.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0731]
gi|392224473|gb|EIV49993.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-R]
gi|392225858|gb|EIV51373.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0930-S]
gi|392238634|gb|EIV64127.1| RNA polymerase sigma factor [Mycobacterium massiliense CCUG 48898]
gi|392249329|gb|EIV74804.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-1231]
gi|392250032|gb|EIV75506.1| RNA polymerase sigma factor [Mycobacterium abscessus 3A-0810-R]
gi|392253717|gb|EIV79185.1| RNA polymerase sigma factor [Mycobacterium massiliense 2B-0107]
gi|395458140|gb|AFN63803.1| RNA polymerase sigma factor sigB [Mycobacterium massiliense str. GO
06]
Length = 323
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 52/141 (36%), Positives = 82/141 (58%), Gaps = 19/141 (13%)
Query: 248 SEGFDRNDP----LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
SE D P +R++L G LLTA++E EL +I+ + L +Q
Sbjct: 14 SEDLDAQSPAADLVRVYLNGIGKTALLTAEDEVELAKRIE---------AGLYAQH---- 60
Query: 304 TLIEWAKAIGLS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
L++ K +G + +DL + GN++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG
Sbjct: 61 -LLDTKKRLGEARKKDLAVIVREGNAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEG 119
Query: 363 SMGLMKSVEKFKPQAGCRFAN 383
++GL++++EKF G +F+
Sbjct: 120 NLGLIRAMEKFDYAKGFKFST 140
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ VR++L L+ +E+ ++RLR+G++DG+ ++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAELLHSDVRSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVRQIERE 304
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 305 VMAKLRHG 312
>gi|67925817|ref|ZP_00519113.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera
watsonii WH 8501]
gi|67852341|gb|EAM47804.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4 [Crocosphaera
watsonii WH 8501]
Length = 386
Score = 81.3 bits (199), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 36/74 (48%), Positives = 55/74 (74%)
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
K IG+S R+L+ L G ++EK+I ANLRLVV V+K+YQG+G+ DL+ EG++GL++
Sbjct: 3 GKEIGISVRELQLILKRGKRAKEKMIQANLRLVVAVSKKYQGKGLEFMDLVSEGNLGLIR 62
Query: 369 SVEKFKPQAGCRFA 382
+VEKF+ G +F+
Sbjct: 63 AVEKFEYDKGYKFS 76
>gi|309791233|ref|ZP_07685765.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308226795|gb|EFO80491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 391
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 51/132 (38%), Positives = 78/132 (59%), Gaps = 17/132 (12%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQ--DLIRLEKEKSKLQSQFGREPTLIEWAKA 311
+DP+R++L LLTA++E EL ++ D+ R ++ + S GRE +E A A
Sbjct: 92 DDPVRMYLQEIGQVPLLTAEKEVELAKSMEAGDIARQRIDREEYTS--GRERMELERAYA 149
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+G C SR+ LI ANLRLVV +AK+Y G+++ DL+QEG++GLM++VE
Sbjct: 150 LG--C-----------ESRQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVE 196
Query: 372 KFKPQAGCRFAN 383
KF G +F+
Sbjct: 197 KFDYTKGHKFST 208
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 52/181 (28%), Positives = 90/181 (49%), Gaps = 41/181 (22%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSC----RDLKSELHSGNSSREKLINANLRLVVHVAKQYQ 349
KLQ REPT E A+A+G+S R L++ +H L L + V ++ +
Sbjct: 248 KLQQSMQREPTPEEIAEAMGISAGKVRRTLEASMHP------------LSLEMPVGQEGE 295
Query: 350 GRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLL 409
GR + D +++ + P + ++R+ + +L L
Sbjct: 296 GR---MGDFIEDDR----------------------ISTPSEAAAAAMLREQIEEVLQKL 330
Query: 410 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 469
+ER I++LR+G++DG+ ++L EVG FG+++ER+RQ+E+ AL +L+ GK GY
Sbjct: 331 PERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRKLRHPHLGKKLRGYL 390
Query: 470 D 470
D
Sbjct: 391 D 391
>gi|224007213|ref|XP_002292566.1| predicted protein [Thalassiosira pseudonana CCMP1335]
gi|220971428|gb|EED89762.1| predicted protein [Thalassiosira pseudonana CCMP1335]
Length = 338
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 31/70 (44%), Positives = 56/70 (80%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + +Q+M+Q +R L+ L+P+E+ ++RLRFG++DGKP++L ++G FG+ KER++++
Sbjct: 254 PSELIDQQMMQQDIRRLVKTLSPREQAVIRLRFGLDDGKPQTLGDIGEKFGVEKERIKKI 313
Query: 449 ESRALYRLKQ 458
E+RAL +L+Q
Sbjct: 314 EARALLKLRQ 323
Score = 71.6 bits (174), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 66/129 (51%), Gaps = 11/129 (8%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ++E L Q++ L+ LE ++ L+ + R PT +WA A + LK ++
Sbjct: 15 LLYKEDEVLLGRQVRLLMGLEGKRRDLEEELLRPPTFAQWASATNHTVPSLKQQIRRSQR 74
Query: 329 SREKLINANLRLVVHVAKQ-----------YQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
++ LI ANLRLV+ VA+Q + + D Q+G +GL ++ EKF P+
Sbjct: 75 AKAALIEANLRLVITVARQAVKKSPFRSSSHAASSVQFQDACQQGIIGLTRATEKFDPEL 134
Query: 378 GCRFANTGV 386
G RF+ +
Sbjct: 135 GFRFSTYAI 143
>gi|33866155|ref|NP_897714.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. WH 8102]
gi|33639130|emb|CAE08136.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 8102]
Length = 313
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ L ++ SK E + G
Sbjct: 17 SDPVSWYLATIGRIPLLTPAEEIELGNQVQAMMTLTEDGSKT----------FEDHELTG 66
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L+ G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 67 KQRRMLRI----GRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ ++ P V++++ + + L+ L+ +E+ +++LRFG+E + +L+E+G +
Sbjct: 224 GDLIADSSLDEPLDIVEQRIHHEQLGRWLSHLSEQEQHVLKLRFGLEGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 MDVSRERVRQVELKALRKLR 303
>gi|116073370|ref|ZP_01470632.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
gi|116068675|gb|EAU74427.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. RS9916]
Length = 313
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q L+ L +Q G P +
Sbjct: 17 SDPISWYLATIGRIPLLTPAEEIELGNQVQQLMAL--------TQDGTIPI-----DSDQ 63
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S +D + + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 64 FSSKD-RRIIRVGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 46.6 bits (109), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 49/80 (61%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ + P V++ + + + L+ L+ +E+ ++ LRFG+ + +L+E+G +
Sbjct: 224 GDLIADNSSDEPLAKVEQSIHHEQLGRWLSHLSDQEQHVLNLRFGLNGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ER+RQ+E +AL +L+
Sbjct: 284 LEVSRERIRQVELKALRKLR 303
>gi|255550882|ref|XP_002516489.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
gi|223544309|gb|EEF45830.1| RNA polymerase sigma factor rpoD, putative [Ricinus communis]
Length = 560
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/117 (36%), Positives = 71/117 (60%)
Query: 267 RKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
R+L+ A E E+ I+ L LEK ++ L+ + R +L WA+A GL + L+ +L G
Sbjct: 260 RRLIIARNEAEMARGIKVLADLEKIRTTLEEETERVVSLSCWAEAAGLDVKVLQQQLSFG 319
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
R++LI + LV++ A+ Y+G GI+L DLLQ G++G+++ E+F G RF+
Sbjct: 320 WYCRDELIKSTRSLVLYFARNYRGTGIALEDLLQAGNLGVLEGAERFDHTRGYRFST 376
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 35/75 (46%), Positives = 51/75 (68%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+T V+ P+ V +Q M Q + NLL L+ +ER ++ LRFG+ D +PKSL E+G F +SK
Sbjct: 472 DTSVQSPEEVVMRQHMIQDMHNLLRSLDSRERQVLILRFGLNDYQPKSLEEIGRHFHVSK 531
Query: 443 ERVRQLESRALYRLK 457
E VR+LE R + RL+
Sbjct: 532 EWVRRLEKRVMTRLR 546
>gi|3893860|gb|AAC78467.1| RNA polymerase sigma factor 1 [Zea mays]
Length = 398
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 77/126 (61%)
Query: 258 RLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR 317
R++L G ++ LLT + +L +I+D I L+ ++SKL+ + G EP+ + A+++ +
Sbjct: 84 RIYLRGTVSKDLLTHKQVVQLSRKIKDGIWLQHQRSKLKEKLGNEPSYKQLAQSLRIPAP 143
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++ + +RE L +N RLV+ +A++Y G+ L DL+Q G +GL++ +EKF
Sbjct: 144 ELRARMRESFLAREMLAMSNTRLVISIAQKYDNLGVELPDLIQGGLIGLLRGIEKFDASR 203
Query: 378 GCRFAN 383
G R +
Sbjct: 204 GFRIST 209
Score = 39.3 bits (90), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 45/73 (61%), Gaps = 4/73 (5%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVR 446
P +++ +++ V +L+ + LN +ER I+RL GI GK + ++ FGLS+ERVR
Sbjct: 315 PWHGFEERYLKEEVNSLINSTLNERERDIIRLYHGI--GKQCHTWEDISRQFGLSRERVR 372
Query: 447 QLESRALYRLKQS 459
Q+ A+ +LK +
Sbjct: 373 QVGLVAMEKLKHA 385
>gi|87301096|ref|ZP_01083937.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
gi|87284064|gb|EAQ76017.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 5701]
Length = 308
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 74/130 (56%), Gaps = 18/130 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q +++L + S P+L +
Sbjct: 16 SDPISWYLGTIGRVPLLTPAEEIELGNQVQAMMQL------IDSGVEDPPSLRQ------ 63
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K L G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 64 ------KQLLRLGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 117
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 118 DPTRGYKFST 127
Score = 49.7 bits (117), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 51/80 (63%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ + P V++ + + + L+ L+ +ER ++ LRFG++ + +L+E+G +
Sbjct: 219 GDLIADSSHDEPLDQVERGMHHEQLERWLSYLSEQERQVLDLRFGLDGHERHTLAEIGRL 278
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 279 LDVSRERVRQVELKALRKLR 298
>gi|163846411|ref|YP_001634455.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus
aurantiacus J-10-fl]
gi|222524178|ref|YP_002568649.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp.
Y-400-fl]
gi|163667700|gb|ABY34066.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus
aurantiacus J-10-fl]
gi|222448057|gb|ACM52323.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp.
Y-400-fl]
Length = 313
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 67/209 (32%), Positives = 109/209 (52%), Gaps = 20/209 (9%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G +DP+ L+L LLT ++E Q L + + + + EP L
Sbjct: 8 GRSASDPIVLYLNEIGAEPLLTFEQE-------QHLAQTMSQGRRAAERLHNEPLLPLAE 60
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
K + L +++++G +R +LIN+NLRLVV +A++YQG G+SL DL+QEGS+GLM++
Sbjct: 61 K------QRLIAQVNAGEQARAQLINSNLRLVVSIARRYQGHGLSLLDLIQEGSVGLMRA 114
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC--IVRLRFGIE--- 424
V+KF G +F+ S+ + + H R + ++ ER + RLR +
Sbjct: 115 VDKFDASRGLKFSTYATYWIRQSIGRAIA-DHSRTVRLPVHLGERLSRLSRLRQELSQQL 173
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLESRAL 453
D +P +L E+ GLS E+V + E L
Sbjct: 174 DREP-TLEELAQAAGLSVEQVERAEQAGL 201
Score = 59.3 bits (142), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 51/176 (28%), Positives = 83/176 (47%), Gaps = 39/176 (22%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L RL + + +L Q REPTL E A+A GLS ++ +G +
Sbjct: 159 LSRLSRLRQELSQQLDREPTLEELAQAAGLSVEQVERAEQAGLAP--------------- 203
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSV--EKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
SL + E G + + + +P P V + +++ V
Sbjct: 204 --------TSLDEPHTEDGGGALAEILTDPLQP------------TPFDEVSESMLQADV 243
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ L L+P+ER I+RLR+G+ DG+P +L ++G L++ERVRQLE AL +L+
Sbjct: 244 QHALQQLSPRERSILRLRYGL-DGEPMHTLEQIGQRLRLTRERVRQLEHEALRKLR 298
>gi|331003577|ref|ZP_08327074.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon
107 str. F0167]
gi|330412418|gb|EGG91809.1| hypothetical protein HMPREF0491_01936 [Lachnospiraceae oral taxon
107 str. F0167]
Length = 409
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 99/210 (47%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 130 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 170
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 171 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 209
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 210 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 265
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N G+++E+V ++
Sbjct: 266 -KLTLELGYEPSVTELANELGMTEEKVMEI 294
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 58/86 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 317 GDFVADANVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 376
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 377 FKVTRERIRQIEAKALRKLRNPVRSK 402
>gi|428780485|ref|YP_007172271.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
gi|428694764|gb|AFZ50914.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Dactylococcopsis salina PCC 8305]
Length = 328
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 79/129 (61%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LLT ++E L Q+Q ++ L ++K +L+ + RE T EW + L
Sbjct: 18 DMVRTYLHEIGRVPLLTHEQEIILGKQVQKMMGLIEQKEELEKELEREVTEEEWVEKTEL 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ +L+ + GN ++ K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 78 TSAELQKAIKDGNRAKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFD 137
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 138 PTRGYKFST 146
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/78 (43%), Positives = 54/78 (69%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + ++ MRQ + ++L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQL
Sbjct: 247 PETYLTQESMRQDIDSMLSELTPQQREVLSLRFGLEDGNELSLAKVGKKLNLSRERVRQL 306
Query: 449 ESRALYRLKQSLGGKASY 466
E +AL +L++ GG Y
Sbjct: 307 EHQALAKLRRRRGGVQEY 324
>gi|307150096|ref|YP_003885480.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC
7822]
gi|306980324|gb|ADN12205.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7822]
Length = 298
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 76/130 (58%), Gaps = 21/130 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL-EKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL ++EE +L ++Q ++ L E +K L + E +IE
Sbjct: 7 DPVRSYLQEIGRIPLLNSEEEIQLATKVQKMLSLLELKKDNLAAA---EQKIIE------ 57
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
G +++++I ANLRLVV +AK+YQ RG+SL DL+QEGS+GL+++VEKF
Sbjct: 58 -----------QGQRAKQQMIQANLRLVVSIAKRYQRRGLSLLDLIQEGSLGLIRAVEKF 106
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 107 DPSKGYKFST 116
Score = 52.4 bits (124), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 44/69 (63%), Gaps = 1/69 (1%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
D +++LM + V +LL L P++R I+ LRFG+ GK S E+G G+S ER RQL
Sbjct: 220 DFVSERELMTK-VDDLLEDLPPRQREIITLRFGLLTGKRMSYKEIGRQCGISHERARQLL 278
Query: 450 SRALYRLKQ 458
+RA+ LKQ
Sbjct: 279 NRAMRTLKQ 287
>gi|6682869|dbj|BAA88921.1| sigma factor [Nicotiana tabacum]
Length = 508
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 80/127 (62%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC 316
L+ ++ G + +LLT E +L +IQ + LE++KS+L+ + G EP+ + A ++ +S
Sbjct: 193 LKGYVKGVVSEELLTHAEVLQLSKKIQVGLYLEEQKSRLKERLGCEPSDDQLAVSLKMSR 252
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
DL+S L + +RE+L +N+RLV+ +A++Y G + DL+Q G +GL++ +EKF P
Sbjct: 253 TDLQSTLIECSLARERLAMSNVRLVMSIAQRYDNVGAEMADLVQGGLIGLLRGIEKFDPS 312
Query: 377 AGCRFAN 383
G + +
Sbjct: 313 KGYKIST 319
Score = 39.3 bits (90), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 398 MRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
++ V NL++ L +ER I+RL +G+ D + + ++ GLS+ERVRQ+ AL +L
Sbjct: 434 LKDEVNNLISSTLRDREREIIRLYYGL-DNECLTWEDISKRIGLSRERVRQVGLVALEKL 492
Query: 457 KQS 459
K +
Sbjct: 493 KHA 495
>gi|335429392|ref|ZP_08556290.1| RNA polymerase sigma factor RpoD [Haloplasma contractile SSD-17B]
gi|334889402|gb|EGM27687.1| RNA polymerase sigma factor RpoD [Haloplasma contractile SSD-17B]
Length = 398
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 46/129 (35%), Positives = 76/129 (58%), Gaps = 10/129 (7%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R++L +LL+ADEE I+ + +++ L+++ +
Sbjct: 95 NDPVRMYLKEIGKVELLSADEEIRYAKDIEAGLMADEQIKDLKAEDALDAD--------- 145
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R LK + G S+ +L+ ANLRLVV +AK++ GRG+ DL+QEG+MGLMK+V+KF
Sbjct: 146 -TERQLKDLIMKGEISKMRLVEANLRLVVSIAKRHVGRGMLFLDLIQEGNMGLMKAVDKF 204
Query: 374 KPQAGCRFA 382
+ G +F+
Sbjct: 205 DYRRGYKFS 213
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 55/84 (65%), Gaps = 7/84 (8%)
Query: 382 ANTGVEIPD---IS----VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 434
+N G IPD IS +L++Q + +L L +E ++RLRFG+ DG+ ++L EV
Sbjct: 302 SNLGDFIPDSETISPAEFASNELLKQELNEVLETLTDREERVLRLRFGLNDGRTRTLEEV 361
Query: 435 GNIFGLSKERVRQLESRALYRLKQ 458
G FG+++ER+RQ+E++AL +L+
Sbjct: 362 GKEFGVTRERIRQIEAKALRKLRH 385
>gi|81300366|ref|YP_400574.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus
PCC 7942]
gi|81169247|gb|ABB57587.1| principal RNA polymerase sigma factor SigA [Synechococcus elongatus
PCC 7942]
Length = 310
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 68/115 (59%), Gaps = 17/115 (14%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTAD+E EL ++Q ++ L +E S + T E A + G
Sbjct: 32 LLTADQEIELGQKVQVMMNLLEETSS-------DRTFTEAETA----------AIQLGQR 74
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E++I ANLRLVV VAK+YQG+G+ DL+QEG++GL ++VEKF P G +F+
Sbjct: 75 AKERMIKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFST 129
Score = 55.8 bits (133), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G E DI ++ + R+ + L L P+ER ++ LRFG+ DG+ +L+E+G + +S+ER
Sbjct: 229 GNEPMDI-MENAMQREQLDAWLEHLTPQERQVLYLRFGLGDGERHTLAEIGRMMEVSRER 287
Query: 445 VRQLESRALYRLK 457
VRQ+E +AL +L+
Sbjct: 288 VRQVEVKALRKLR 300
>gi|257791063|ref|YP_003181669.1| RpoD subfamily RNA polymerase sigma-70 subunit [Eggerthella lenta
DSM 2243]
gi|317488219|ref|ZP_07946788.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA]
gi|325830757|ref|ZP_08164141.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1]
gi|257474960|gb|ACV55280.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Eggerthella lenta
DSM 2243]
gi|316912661|gb|EFV34201.1| RNA polymerase sigma factor RpoD [Eggerthella sp. 1_3_56FAA]
gi|325487164|gb|EGC89607.1| RNA polymerase sigma factor RpoD [Eggerthella sp. HGA1]
Length = 409
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 107/207 (51%), Gaps = 28/207 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFEL-------IAQIQDLIRLEKEKSKLQSQFGREPTLI 306
DP+R++L LLTA EE +L +A +++L + E E +L+ + R I
Sbjct: 105 GDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAAMEELEKAEDEGIELERREKRRLGRI 164
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E G ++++LI ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 165 E----------------QVGIDAKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 208
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC--IVRLRFGI- 423
+++VEKF G +F+ ++ + + Q R + ++ E +VR++ +
Sbjct: 209 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQ-ARTIRIPVHMVETINKLVRIQRQLL 267
Query: 424 -EDGKPKSLSEVGNIFGLSKERVRQLE 449
E G+ S E+G GL ERVR+++
Sbjct: 268 QELGREPSPEEIGKEMGLPAERVREIQ 294
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 52/82 (63%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P++L EVG
Sbjct: 314 QLGDFIEDDAAVVPPDAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPRTLEEVG 373
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 374 REFGVTRERIRQIESKTLAKLR 395
>gi|218440090|ref|YP_002378419.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218172818|gb|ACK71551.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 295
Score = 80.9 bits (198), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 75/130 (57%), Gaps = 23/130 (17%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R +L LL ++EE +L ++Q+++ LEKE
Sbjct: 7 DPVRSYLQEIGRIPLLNSEEEVQLATKVQNMLPLLEKE---------------------N 45
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L+ + K + G ++ K+I ANLRLVV +AK+YQ RG+SL DL+QEGS+GL+++VEKF
Sbjct: 46 LTAAE-KKIVEQGQIAKRKMIQANLRLVVSIAKRYQRRGLSLLDLIQEGSLGLIRAVEKF 104
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 105 DPSKGYKFST 114
Score = 52.8 bits (125), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/57 (47%), Positives = 38/57 (66%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ +LL L P++R I+ LRFG++ GK S E+G G+S ER RQL +RA+ LKQ
Sbjct: 229 INDLLEDLPPRQREIITLRFGLQTGKRMSYKEIGRQCGISHERARQLLNRAMRTLKQ 285
>gi|56750024|ref|YP_170725.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus
PCC 6301]
gi|56684983|dbj|BAD78205.1| group2 RNA polymerase sigma factor RpoD6 [Synechococcus elongatus
PCC 6301]
Length = 316
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 46/115 (40%), Positives = 68/115 (59%), Gaps = 17/115 (14%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTAD+E EL ++Q ++ L +E S + T E A + G
Sbjct: 38 LLTADQEIELGQKVQVMMNLLEETSS-------DRTFTEAETA----------AIQLGQR 80
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++E++I ANLRLVV VAK+YQG+G+ DL+QEG++GL ++VEKF P G +F+
Sbjct: 81 AKERMIKANLRLVVSVAKKYQGKGLEFLDLIQEGALGLERAVEKFDPSKGYKFST 135
Score = 55.8 bits (133), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 49/73 (67%), Gaps = 1/73 (1%)
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
G E DI ++ + R+ + L L P+ER ++ LRFG+ DG+ +L+E+G + +S+ER
Sbjct: 235 GNEPMDI-MENAMQREQLDAWLEHLTPQERQVLYLRFGLGDGERHTLAEIGRMMEVSRER 293
Query: 445 VRQLESRALYRLK 457
VRQ+E +AL +L+
Sbjct: 294 VRQVEVKALRKLR 306
>gi|425443241|ref|ZP_18823466.1| putative RNA polymerase sigma-C factor (fragment) [Microcystis
aeruginosa PCC 9717]
gi|389715506|emb|CCI00140.1| putative RNA polymerase sigma-C factor (fragment) [Microcystis
aeruginosa PCC 9717]
Length = 135
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 37/76 (48%), Positives = 53/76 (69%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA GL +L+ + G ++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 40 WAHLAGLEVGELEEIIALGTRAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 99
Query: 368 KSVEKFKPQAGCRFAN 383
++V+KF P G RF+
Sbjct: 100 RAVKKFDPTKGYRFST 115
>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 = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/206 (30%), Positives = 103/206 (50%), Gaps = 26/206 (12%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLI 306
DP+R++L LLTA EE L +I Q L E EK +L R I
Sbjct: 151 GDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGTEATQKLEDFEDEKIELSRAEQRRLMRI 210
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E G ++++LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 211 E----------------QVGLDAKQQLISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 254
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIE 424
+++VEKF G +F+ ++ + + Q +R + ++ + I R ++
Sbjct: 255 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQ 314
Query: 425 D-GKPKSLSEVGNIFGLSKERVRQLE 449
D G+ + E+G G+S +RVR+++
Sbjct: 315 DLGRDPTPEEIGAEMGMSPDRVREIQ 340
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/75 (38%), Positives = 53/75 (70%), Gaps = 1/75 (1%)
Query: 383 NTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
+T + PD + ++R+ + +L L +ER +++ RFG+EDG+P++L EVG FG+++
Sbjct: 368 STAIAPPD-AASDSMLREQLEQVLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTR 426
Query: 443 ERVRQLESRALYRLK 457
ER+RQ+ES+ L +L+
Sbjct: 427 ERIRQIESKTLAKLR 441
>gi|392946711|ref|ZP_10312353.1| RNA polymerase sigma factor, sigma-70 family [Frankia sp. QA3]
gi|392290005|gb|EIV96029.1| RNA polymerase sigma factor, sigma-70 family [Frankia sp. QA3]
Length = 422
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 34/68 (50%), Positives = 54/68 (79%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
CRDL + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 172 CRDLGLLVKDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDY 231
Query: 376 QAGCRFAN 383
G +F+
Sbjct: 232 AKGYKFST 239
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L LNP+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 350 MQDEIENVLGGLNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 409
Query: 458 Q 458
+
Sbjct: 410 K 410
>gi|242089059|ref|XP_002440362.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor]
gi|241945647|gb|EES18792.1| hypothetical protein SORBIDRAFT_09g030350 [Sorghum bicolor]
Length = 529
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 43/117 (36%), Positives = 67/117 (57%), Gaps = 1/117 (0%)
Query: 267 RKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
R+ + E+ L+A I++ LEK + K+ + G+E + WA+A G+ +L S L +G
Sbjct: 226 RRRIIVREQSALLATIKECASLEKIREKMVKE-GQEVSYHRWAEAAGMDEAELMSRLQTG 284
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RE+L+ LV +A+ Y G G +L DLLQ G MG++ EKF + GCRF+
Sbjct: 285 YCCRERLLVTTEWLVRCIARSYTGMGTALDDLLQAGKMGVLDGAEKFDTRKGCRFST 341
Score = 46.6 bits (109), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 39/56 (69%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
+R+ + +L L +E ++RLR G+EDG+ +SL E+G ++ +SKE +R++E A+
Sbjct: 456 LRERLLLVLGRLPAREGHVLRLRHGLEDGRCRSLEEIGGMYRVSKEWIRKIEKSAM 511
>gi|158316157|ref|YP_001508665.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec]
gi|158111562|gb|ABW13759.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec]
Length = 400
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 76/130 (58%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L +LLTA+EE +L +I+ + KL + P L
Sbjct: 101 SDPVRMYLKAIGRVRLLTAEEEVDLAKRIEAGL---FASEKLAAIRRTSPRL-------- 149
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL+++VEKF
Sbjct: 150 --RRDLEAIEQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKF 207
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 208 DYTKGYKFST 217
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 48/60 (80%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG+P++L +VG FG+++ER+RQ+ESR L +L
Sbjct: 327 LLQEQIDSVLHTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIESRTLAKL 386
>gi|320159820|ref|YP_004173044.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1]
gi|319993673|dbj|BAJ62444.1| RNA polymerase sigma factor [Anaerolinea thermophila UNI-1]
Length = 396
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 51/66 (77%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+L++++ G S+RE LI AN RLVV +AK+Y GRG+ DL+QEG++GLMK+VEK++ Q
Sbjct: 148 ELEAQIQDGESAREHLIKANTRLVVSIAKRYIGRGVPFLDLIQEGNLGLMKAVEKYEYQR 207
Query: 378 GCRFAN 383
G RF+
Sbjct: 208 GFRFST 213
Score = 58.5 bits (140), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 25/55 (45%), Positives = 42/55 (76%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
L+R+ ++ +L L +E I+RLRFG+E+G+ +L EVG FGL++ER+RQ+E++
Sbjct: 324 LLREKIQEVLDTLPAREARILRLRFGLENGRTYTLEEVGQKFGLTRERIRQIENK 378
>gi|123966683|ref|YP_001011764.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9515]
gi|123201049|gb|ABM72657.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9515]
Length = 313
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/135 (37%), Positives = 75/135 (55%), Gaps = 24/135 (17%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK-----EKSKLQSQFGREPTLIEW 308
NDP+ +L LLT EE EL Q+Q ++ L + EK+K +F +
Sbjct: 17 NDPISWYLSNIGRVPLLTPAEEIELGNQVQKMMTLTEDGQLNEKTK---EFTPQQ----- 68
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
K + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL +
Sbjct: 69 -----------KRTIKIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLER 117
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF P G +F+
Sbjct: 118 AVEKFDPTRGYKFST 132
Score = 52.4 bits (124), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++++ ++ + LT L+ +E+ +++LRFG++ + +L+E+G +
Sbjct: 224 GDLIADSNNEEPLDQVEQKMHQEQLGKWLTHLSEQEQHVLKLRFGLDGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LEVSRERVRQVELKALRKLR 303
>gi|67921071|ref|ZP_00514590.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH
8501]
gi|67857188|gb|EAM52428.1| Sigma-70 region 2:Sigma-70 region 1.2 [Crocosphaera watsonii WH
8501]
Length = 250
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 45/112 (40%), Positives = 63/112 (56%), Gaps = 22/112 (19%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------------------SRE 331
+L + G P+ +WAKA +S +LK L G S +++
Sbjct: 122 QLMAYLGHRPSWEKWAKASEVSVFELKEILVQGKSQWAVLANMDVAELEEIQKSGIKAKD 181
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL K+VEKF P G RF+
Sbjct: 182 EIIKANLRLVVSVAKKYQHRGLELLDLIQEGTLGLEKAVEKFDPVKGYRFST 233
>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 = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 72/130 (55%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + K
Sbjct: 92 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAVATKKTSP 139
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 140 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 199
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 200 DYTKGYKFST 209
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 319 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 378
Query: 457 K 457
+
Sbjct: 379 R 379
>gi|291451171|ref|ZP_06590561.1| RNA polymerase sigma factor [Streptomyces albus J1074]
gi|291354120|gb|EFE81022.1| RNA polymerase sigma factor [Streptomyces albus J1074]
Length = 397
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/141 (34%), Positives = 80/141 (56%), Gaps = 13/141 (9%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 147 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 206
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGK 427
G +F+ ++ + L Q HV L+ + +R +++ E G+
Sbjct: 207 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQ-----EAGR 261
Query: 428 PKSLSEVGNIFGLSKERVRQL 448
+ EVG GLS E+V ++
Sbjct: 262 EPAAEEVGERLGLSAEKVEEV 282
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/72 (44%), Positives = 52/72 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL
Sbjct: 324 LLRQHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRL 383
Query: 457 KQSLGGKASYGY 468
++ GY
Sbjct: 384 REHTAAGQLRGY 395
>gi|312195044|ref|YP_004015105.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia sp. EuI1c]
gi|311226380|gb|ADP79235.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EuI1c]
Length = 424
Score = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 77/129 (59%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L LL A +E EL +++ + E KL + EP L
Sbjct: 126 DLVRMYLREIGRVPLLNAAQEVELSKRVEAGLFAEH---KLATAADLEPEL--------- 173
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 174 -HRDLKLLVRDGEAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFD 232
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 233 YAKGYKFST 241
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + ++L L+P+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 352 MQDEIDHVLGNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 411
Query: 458 Q 458
+
Sbjct: 412 K 412
>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 = 80.5 bits (197), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 72/130 (55%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + K
Sbjct: 109 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAVATKKTSP 156
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 157 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 216
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 217 DYTKGYKFST 226
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 336 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 395
Query: 457 K 457
+
Sbjct: 396 R 396
>gi|307155201|ref|YP_003890585.1| RpoD subfamily RNA polymerase sigma-70 factor [Cyanothece sp. PCC
7822]
gi|306985429|gb|ADN17310.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7822]
Length = 295
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/115 (41%), Positives = 66/115 (57%), Gaps = 23/115 (20%)
Query: 269 LLTADEEFELIAQIQDLIRL-EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL A +E EL Q+Q ++ L +KE PT E K + G
Sbjct: 21 LLNAQQEIELATQVQKMMALIDKEN----------PTPEE------------KRIIQQGK 58
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+INANLRLVV +AK+YQ RG+S DL+QEGS+GL++ VEKF P G +F+
Sbjct: 59 RAKRKMINANLRLVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFS 113
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/175 (29%), Positives = 84/175 (48%), Gaps = 33/175 (18%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L +L++ +L + GR PT E A A+ LS +L + + + +R +N +
Sbjct: 143 ESLNKLKRVTRQLTGELGRRPTEQELANALELSLHELHAIRQADHRTRSYSLNMKM---- 198
Query: 343 HVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV 402
+ L +LL + S E P+ V + +R V
Sbjct: 199 ------EDEQTELEELLADNS-----------------------ETPNDFVAQIELRSMV 229
Query: 403 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
LL L P+++ I+ LR+G+++G+ SL EVGN LS+ERVRQL++RA+ LK
Sbjct: 230 DELLESLPPRQQEIIALRYGLKNGRQMSLEEVGNYCNLSRERVRQLQNRAMRTLK 284
>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 = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 72/130 (55%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + K
Sbjct: 109 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAVATKKTSP 156
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 157 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 216
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 217 DYTKGYKFST 226
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 336 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 395
Query: 457 K 457
+
Sbjct: 396 R 396
>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 = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 72/130 (55%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + K
Sbjct: 92 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAVATKKTSP 139
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 140 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 199
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 200 DYTKGYKFST 209
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 319 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 378
Query: 457 K 457
+
Sbjct: 379 R 379
>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 = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 72/130 (55%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E + K
Sbjct: 109 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAVATKKTSP 156
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 157 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 216
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 217 DYTKGYKFST 226
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 336 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 395
Query: 457 K 457
+
Sbjct: 396 R 396
>gi|339443528|ref|YP_004709533.1| hypothetical protein CXIVA_24640 [Clostridium sp. SY8519]
gi|338902929|dbj|BAK48431.1| hypothetical protein CXIVA_24640 [Clostridium sp. SY8519]
Length = 435
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 47/136 (34%), Positives = 82/136 (60%), Gaps = 13/136 (9%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE-KSKLQSQFGREPTLIE 307
+G + +DP+R++L LLTA+EE +L +++ I +K + ++Q E
Sbjct: 129 DGINIDDPVRMYLKEIGKVPLLTAEEEIDLAMKMEAGINADKALEEDTENQLSEEEK--- 185
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
K + ++ R+ G +++++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 186 --KQLTITSRE-------GENAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLI 236
Query: 368 KSVEKFKPQAGCRFAN 383
K+VEKF + G +F+
Sbjct: 237 KAVEKFDYRKGYKFST 252
Score = 62.4 bits (150), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 56/93 (60%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + V +P + L+++ + +L L +E+ ++RLRFG++DG+ ++L EVG
Sbjct: 343 GDFIQDDNVPVPADAAAFTLLKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKE 402
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
F +++ER+RQ+E++AL +L+ + Y D
Sbjct: 403 FNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 435
>gi|210633964|ref|ZP_03297935.1| hypothetical protein COLSTE_01853 [Collinsella stercoris DSM 13279]
gi|210159008|gb|EEA89979.1| RNA polymerase sigma factor RpoD [Collinsella stercoris DSM 13279]
Length = 445
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 106/199 (53%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE +L +I+ + KL+ Q E IE +A
Sbjct: 140 GDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGL---DAADKLEKQ---EAGEIELTRA-- 191
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G +++ LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 192 -EMRRLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 250
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
+ G +F+ ++ + + Q +R + ++ + + R ++D G+ +
Sbjct: 251 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 310
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G +S +RVR+++
Sbjct: 311 PEEIGAEMDMSADRVREIQ 329
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 51/82 (62%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+ DG P++L EVG
Sbjct: 349 QLGDFIEDAQAVVPADAASFSMLQEQLTQVLDGLAERERKVIELRFGLVDGHPRTLEEVG 408
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 409 REFGVTRERIRQIESKTLAKLR 430
>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 = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 49/139 (35%), Positives = 77/139 (55%), Gaps = 13/139 (9%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP--T 304
+ + F +DP+R++L LL++DEE EL + +++ ++LQ P
Sbjct: 136 MVDSFGTDDPVRMYLKEIGKVNLLSSDEEIELAQAMGAGAEAKEQLAELQESGEEIPAEV 195
Query: 305 LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSM 364
L E KAI G ++++L ANLRLVV +AK+Y GRG+ DL+QEG++
Sbjct: 196 LAELNKAI-----------KRGERAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNL 244
Query: 365 GLMKSVEKFKPQAGCRFAN 383
GL+K+VEKF G +F+
Sbjct: 245 GLIKAVEKFDYTKGYKFST 263
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + +L+ L P+E +++LRFGIEDG+ ++L EVG F +++ER+RQ+E++AL +L
Sbjct: 373 LLKEQLVEVLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKL 432
Query: 457 K 457
+
Sbjct: 433 R 433
>gi|408825995|ref|ZP_11210885.1| RNA polymerase sigma factor [Streptomyces somaliensis DSM 40738]
Length = 363
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/188 (32%), Positives = 97/188 (51%), Gaps = 26/188 (13%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +I+ + E+ + R P L DL + + G +
Sbjct: 80 LLTAAEEVELARRIEAGLFAEE-------KLARTPDLDSRLAG------DLDTLVVRGRT 126
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++ +LI ANLRLVV +AK+Y GRG++L DL+QEG++GL+++VEKF + G +F+
Sbjct: 127 AKRRLIEANLRLVVSIAKRYAGRGLTLPDLVQEGNLGLIRAVEKFDHERGFKFSTYATWW 186
Query: 389 PDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
++ + L Q HV L+ + +R I++ E G+ + EV GL
Sbjct: 187 IRQAMSRALADQARTIRVPVHVVELINRVVRTQRRILQ-----EHGREPTAEEVAAHLGL 241
Query: 441 SKERVRQL 448
ERV ++
Sbjct: 242 PPERVGEV 249
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 63/256 (24%), Positives = 110/256 (42%), Gaps = 35/256 (13%)
Query: 216 LERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEE 275
+ +R R ++ P + +A K GF + ++ +R L
Sbjct: 142 IAKRYAGRGLTLPDLVQEGNLGLIRAVEKFDHERGFKFSTYATWWIRQAMSRALADQART 201
Query: 276 FELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
+ + +LI R+ + + ++ + GREPT E A +GL + L
Sbjct: 202 IRVPVHVVELINRVVRTQRRILQEHGREPTAEEVAAHLGLPPERVGEVLRLAQEP----- 256
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
V + G +L DL+++G A + VE S
Sbjct: 257 -------VSLHAPVGGEDTALGDLIEDGD------------------AASPVE----SAA 287
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
L+RQH+ +L L +ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES L
Sbjct: 288 FLLLRQHLEAVLCTLGEREREVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESNTLG 347
Query: 455 RLKQSLGGKASYGYAD 470
+L+ GY D
Sbjct: 348 KLRAHAFAGHLRGYLD 363
>gi|299472120|emb|CBN77105.1| RNA polymerase sigma factor [Ectocarpus siliculosus]
Length = 555
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 107/197 (54%), Gaps = 18/197 (9%)
Query: 265 ETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIGLSCRDLKSEL 323
+T +T EE L+ +++ L R K + +L+++ G REPT EWA ++ +S +L ++
Sbjct: 175 DTAGRMTIAEEILLVEEVKILARYLKTREQLEAELGGREPTREEWAASLNISTEELAHQM 234
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQ----GRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+ ++E+++ AN+ L+V +A+++ RG D++QEGS+ ++++ E F P+ G
Sbjct: 235 VASARAQERIVGANVGLIVVMARRHHPATMARGTITSDVIQEGSLAVLRAAETFDPRLGY 294
Query: 380 RFAN-TGVEIPD-----ISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSL 431
RF+ G + D ++ Q +++R Q+V N + E +++ E G+ +
Sbjct: 295 RFSTYAGWWVRDRVTRCVTQQARIIRLPQYVHNFRRTASMTEAALLK-----ELGRRPTY 349
Query: 432 SEVGNIFGLSKERVRQL 448
E+ + ERV +L
Sbjct: 350 DEIAERMRVDVERVTRL 366
Score = 48.5 bits (114), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 42/73 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ + L + LL++L+ ER +V+LR+G+ P + EV G +K RVR +
Sbjct: 439 PEQRAEVGLFESKLDKLLSVLSEDERLVVKLRYGLGGASPTTWGEVAARAGSTKHRVRMV 498
Query: 449 ESRALYRLKQSLG 461
E+RAL +L++ G
Sbjct: 499 ETRALNKLRRRPG 511
>gi|365924947|ref|ZP_09447710.1| RNA polymerase sigma factor RpoD [Lactobacillus mali KCTC 3596 =
DSM 20444]
gi|420266363|ref|ZP_14768838.1| RNA polymerase sigma factor RpoD [Lactobacillus mali KCTC 3596 =
DSM 20444]
gi|394425595|gb|EJE98541.1| RNA polymerase sigma factor RpoD [Lactobacillus mali KCTC 3596 =
DSM 20444]
Length = 374
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 54/149 (36%), Positives = 75/149 (50%), Gaps = 44/149 (29%)
Query: 238 SRKASVKKKLSE--GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKL 295
+ KAS +K +S G NDP+R++L LLTADEE L +I++
Sbjct: 84 AEKASSEKNVSAPAGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEE----------- 132
Query: 296 QSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGIS 354
GN S+++L ANLRLVV +AK+Y GRG+S
Sbjct: 133 ------------------------------GNEESKQRLAEANLRLVVSIAKRYVGRGMS 162
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG+MGLMK+VEKF + G +F+
Sbjct: 163 FLDLIQEGNMGLMKAVEKFDYRKGFKFST 191
Score = 68.6 bits (166), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 50/63 (79%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 300 ELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 359
Query: 456 LKQ 458
L+
Sbjct: 360 LRH 362
>gi|229815176|ref|ZP_04445512.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM
13280]
gi|229809186|gb|EEP44952.1| hypothetical protein COLINT_02221 [Collinsella intestinalis DSM
13280]
Length = 448
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 106/199 (53%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE +L +I+ + KL+ Q E IE +A
Sbjct: 143 GDPVRMYLKEIGKVDLLTAAEEVDLAMKIEAGL---DAADKLEKQ---EAGEIELTRA-- 194
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G +++ LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 195 -EMRRLMRVEQVGLDAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 253
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
+ G +F+ ++ + + Q +R + ++ + + R ++D G+ +
Sbjct: 254 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 313
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G +S +RVR+++
Sbjct: 314 PEEIGAEMDMSADRVREIQ 332
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 52/82 (63%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P++L EVG
Sbjct: 352 QLGDFIEDAQAVVPADAASFSMLQEQLTQVLDGLAERERKVIELRFGLEDGHPRTLEEVG 411
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 412 REFGVTRERIRQIESKTLAKLR 433
>gi|443323548|ref|ZP_21052553.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
gi|442786728|gb|ELR96456.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Gloeocapsa sp. PCC 73106]
Length = 381
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 55/173 (31%), Positives = 82/173 (47%), Gaps = 43/173 (24%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL+ +EE L +IQ ++L + +++
Sbjct: 27 TDLVRLYLQDIGKIPLLSKEEEVVLAQKIQRYLQLLELRAQACQQLDPVMAEFARLITVH 86
Query: 295 --LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SSR 330
L +Q G P+L WAK L +LK L +G ++
Sbjct: 87 DHLAAQLGHRPSLKTWAKTGNLEITELKQILTTGKLCWAQIAKLELKELEMIQKAGIEAK 146
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L+ ANLRLVV +AK+YQ RG+ L DL+QEG++GL K+V+KF P G RF+
Sbjct: 147 NTLLAANLRLVVSIAKKYQNRGLELLDLIQEGTLGLEKAVDKFDPTKGYRFST 199
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/61 (44%), Positives = 44/61 (72%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ Q + LL L +ER ++ LR+G+++G SLSE+G I LS+ERVRQ+E++A+ +L+
Sbjct: 309 LHQDLEKLLAQLTRREREVISLRYGLKEGMCYSLSEIGRILALSRERVRQIETKAMQKLR 368
Query: 458 Q 458
Q
Sbjct: 369 Q 369
>gi|72382695|ref|YP_292050.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus str. NATL2A]
gi|124026414|ref|YP_001015529.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL1A]
gi|72002545|gb|AAZ58347.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus str. NATL2A]
gi|123961482|gb|ABM76265.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. NATL1A]
Length = 313
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q L+ L E +++ Q +K
Sbjct: 17 SDPISWYLSSIGRVPLLTPAEEIELGNQVQTLMSL-TEDGQIKEQ----------SKEFT 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 66 SHQRRL---IRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 76/303 (25%), Positives = 135/303 (44%), Gaps = 61/303 (20%)
Query: 181 AENPKLNGAEFTDISLTSSLGYPLEEVKQFS--QPRFLE--RRSKKRKVS---KPQVTNH 233
AE +L T +SLT G E+ K+F+ Q R + RR+K+R + + V+
Sbjct: 36 AEEIELGNQVQTLMSLTED-GQIKEQSKEFTSHQRRLIRIGRRAKERMMKANLRLVVSVA 94
Query: 234 ETYNSRKASVKKKLSEG-------FDRNDPLR-------LFLWGPE--TRKLLTADEEFE 277
+ Y + + + EG ++ DP R F W + TR +
Sbjct: 95 KKYQGKGLELLDLVQEGSLGLERAVEKFDPTRGYKFSTYAFWWIRQSMTRAIACQSRTIR 154
Query: 278 LIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG--NSSREKLI 334
L + + L + K L + G P+ IE A+A+ + +L S L SS + +
Sbjct: 155 LPVHLSERLATIRKVSLDLAHKLGAMPSRIEIAEAMEIELEELDSILRQALTTSSLDAPV 214
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
N + +GR L DL+ +GS E P V+
Sbjct: 215 NGD-----------EGRSF-LGDLIADGSG----------------------EEPLDKVE 240
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
+++ ++ + L+ L+ +E+ ++RLRFG+E + +L+E+G + +S+ERVRQ+E +AL
Sbjct: 241 QKIHQEQLGRWLSHLSEQEQHVIRLRFGLEGNERHTLAEIGRLLQVSRERVRQVELKALR 300
Query: 455 RLK 457
+L+
Sbjct: 301 KLR 303
>gi|339444818|ref|YP_004710822.1| hypothetical protein EGYY_12580 [Eggerthella sp. YY7918]
gi|338904570|dbj|BAK44421.1| hypothetical protein EGYY_12580 [Eggerthella sp. YY7918]
Length = 419
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 66/211 (31%), Positives = 106/211 (50%), Gaps = 36/211 (17%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFEL-------IAQIQDLIRLEKEKSKLQSQFGREPTLI 306
DP+R++L LLTA EE +L +A ++L + E E +L+ + R I
Sbjct: 115 GDPVRMYLKEIGKVPLLTAAEEIDLAMKIEAGVAATEELEKAEDEGIELERREKRRLGRI 174
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E G ++++LI ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 175 E----------------QVGIDAKQQLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 218
Query: 367 MKSVEKFKPQAGCRFANTGV------EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 420
+++VEKF G +F+ I+ Q + +R V + T+ +VR++
Sbjct: 219 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI-----NKLVRIQ 273
Query: 421 FGI--EDGKPKSLSEVGNIFGLSKERVRQLE 449
+ E G+ S E+G GL ERVR+++
Sbjct: 274 RQLLQELGREPSPEEIGKEMGLPAERVREIQ 304
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 52/82 (63%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P++L EVG
Sbjct: 324 QLGDFIEDDAAVVPPDAASFSMLQEQLSKVLDGLAERERKVIALRFGLEDGHPRTLEEVG 383
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 384 REFGVTRERIRQIESKTLAKLR 405
>gi|283780188|ref|YP_003370943.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pirellula staleyi
DSM 6068]
gi|283438641|gb|ADB17083.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pirellula staleyi
DSM 6068]
Length = 320
Score = 80.1 bits (196), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 85/141 (60%), Gaps = 11/141 (7%)
Query: 314 LSCRD---LKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
LS RD L + + G+ +R++++ ANLRLVV++A+ Y G+G+SL DL++EG++GL+++
Sbjct: 56 LSARDERELAAAIADGDVRARDRMVRANLRLVVNIARGYTGKGLSLQDLIEEGNLGLLRA 115
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMR--QHVR---NLLTLLNPKERCIVRLRFGIE 424
VE F P G RF+ S+++ L+ + +R ++ LL+ R RL E
Sbjct: 116 VEGFDPAVGTRFSTYASYWIKQSIKRALINSAKTIRIPAYMVELLSKWRRATARLTE--E 173
Query: 425 DGKPKSLSEVGNIFGLSKERV 445
G+ + EV + GL+K+++
Sbjct: 174 LGRGPTPEEVARVLGLAKKKL 194
Score = 61.6 bits (148), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 49/196 (25%), Positives = 94/196 (47%), Gaps = 36/196 (18%)
Query: 267 RKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
R L+ + + + A + +L+ + + ++L + GR PT E A+ +GL+ + L
Sbjct: 141 RALINSAKTIRIPAYMVELLSKWRRATARLTEELGRGPTPEEVARVLGLAKKKLP----- 195
Query: 326 GNSSREKLINANLRLVVHVAKQYQGR-GISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
+I +R+ + Q G SL +++ + E+ K
Sbjct: 196 -------IIKKAIRIYNSTPQTDQSEAGWSLGEIVMD---------ERLKN--------- 230
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
P+ + +Q + +HV +L ++ +E ++R+RFG+ D P +L E+G GL++ER
Sbjct: 231 ----PEDELVEQDVLKHVMEMLHTMDSREATVLRMRFGLGDTTPHTLKEIGESLGLTRER 286
Query: 445 VRQLESRALYRLKQSL 460
VRQ+E+ AL +L L
Sbjct: 287 VRQIETEALGKLADGL 302
>gi|427717976|ref|YP_007065970.1| RpoD subfamily RNA polymerase sigma-70 subunit [Calothrix sp. PCC
7507]
gi|427350412|gb|AFY33136.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Calothrix sp. PCC
7507]
Length = 371
Score = 80.1 bits (196), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 42/114 (36%), Positives = 71/114 (62%), Gaps = 6/114 (5%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ + + + ++ LQ+ G + A + ++ + L+S L+ G
Sbjct: 79 LLKPDEEVELARRVRFIEEVRELQASLQATKG------QVAAELDMTEKQLESRLYQGRV 132
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F+
Sbjct: 133 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFS 186
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 55/81 (67%), Gaps = 1/81 (1%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ + + +MRQ + +L +L P+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ
Sbjct: 289 PEAKMNENMMRQEIWEVLGDVLTPREKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQ 348
Query: 448 LESRALYRLKQSLGGKASYGY 468
++S+A+ +L++ K G+
Sbjct: 349 IQSKAMRKLRRPHIAKRLKGW 369
>gi|318080032|ref|ZP_07987364.1| RNA polymerase sigma factor [Streptomyces sp. SA3_actF]
Length = 340
Score = 80.1 bits (196), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 94/164 (57%), Gaps = 13/164 (7%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 92 DLDRLVVLGRAAKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTR 151
Query: 378 GCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGI--EDGKPKS 430
G +F+ ++ + L Q +R +++ L+N +VR++ G+ E G S
Sbjct: 152 GFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELIN----RVVRVQRGLLQERGHEPS 207
Query: 431 LSEVGNIFGLSKERVRQLESRAL--YRLKQSLGGKASYGYADLL 472
+EV + GL+KERV ++ A L +GG+ DL+
Sbjct: 208 HAEVAALLGLTKERVGEVLRLAQEPVSLHTPVGGEDEVALGDLI 251
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 49/67 (73%)
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGK 463
++L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+E++ L +L+
Sbjct: 274 DVLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHAFAD 333
Query: 464 ASYGYAD 470
GY D
Sbjct: 334 QLRGYLD 340
>gi|318058872|ref|ZP_07977595.1| RNA polymerase principal sigma factor [Streptomyces sp. SA3_actG]
gi|333027299|ref|ZP_08455363.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp.
Tu6071]
gi|332747151|gb|EGJ77592.1| putative RNA polymerase sigma (70) factor RpoD [Streptomyces sp.
Tu6071]
Length = 338
Score = 80.1 bits (196), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 56/164 (34%), Positives = 94/164 (57%), Gaps = 13/164 (7%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 90 DLDRLVVLGRAAKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTR 149
Query: 378 GCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGI--EDGKPKS 430
G +F+ ++ + L Q +R +++ L+N +VR++ G+ E G S
Sbjct: 150 GFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELIN----RVVRVQRGLLQERGHEPS 205
Query: 431 LSEVGNIFGLSKERVRQLESRAL--YRLKQSLGGKASYGYADLL 472
+EV + GL+KERV ++ A L +GG+ DL+
Sbjct: 206 HAEVAALLGLTKERVGEVLRLAQEPVSLHTPVGGEDEVALGDLI 249
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/67 (38%), Positives = 49/67 (73%)
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGK 463
++L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+E++ L +L+
Sbjct: 272 DVLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHAFAD 331
Query: 464 ASYGYAD 470
GY D
Sbjct: 332 QLRGYLD 338
>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 = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 45/135 (33%), Positives = 81/135 (60%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
++ + +DP+R++L LLTA+EE +L +++ ++ +++ L+ + E
Sbjct: 296 TDAVNIDDPVRMYLKEIGKVHLLTAEEEVDLAQKMEKGLKADEQIEILREEIRSGDLSEE 355
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+ + LK++ G +++KL ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 356 DMMNLEAQIKILKNDSAVGERAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLI 415
Query: 368 KSVEKFKPQAGCRFA 382
K+VEKF G +F+
Sbjct: 416 KAVEKFDYTKGYKFS 430
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 46/61 (75%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + +L L +ER ++ LRFG+EDG+ ++L EVG F +++ER+RQ+E++AL +L
Sbjct: 541 LLKEQLNEVLDTLTERERKVLILRFGLEDGRGRTLEEVGKEFNVTRERIRQIEAKALRKL 600
Query: 457 K 457
+
Sbjct: 601 R 601
>gi|407894006|ref|ZP_11153036.1| RNA polymerase sigma-32 subunit RpoH [Diplorickettsia massiliensis
20B]
Length = 289
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 46/135 (34%), Positives = 73/135 (54%), Gaps = 11/135 (8%)
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
H + +KLI ANLR VVH+A+ Y G G++L DL+QEG++GLMK+V++F P+ G R +
Sbjct: 43 HQDLEAAKKLIIANLRFVVHIAQTYMGYGLALADLIQEGNIGLMKAVKRFDPKVGVRLIS 102
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK-------PKSLSEVGN 436
V +Q+ ++ +N + + +L F I K K + V +
Sbjct: 103 FAVHWIKAEIQEFIL----KNWRIVKIATTKAQRKLFFNIRRMKSRLGWFNAKEIKAVAD 158
Query: 437 IFGLSKERVRQLESR 451
G+ E VR++ESR
Sbjct: 159 DLGVKPEAVREMESR 173
Score = 39.3 bits (90), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 41/63 (65%), Gaps = 4/63 (6%)
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS-LSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++ LT L+P+ + I+R R+ G PK+ L E+ N + +S ERVRQLE +A+ L+
Sbjct: 224 QERLQGALTNLDPRAQTIIRERWL---GHPKTTLQELANRYQVSAERVRQLEKKAIKDLR 280
Query: 458 QSL 460
++
Sbjct: 281 LAI 283
>gi|260434805|ref|ZP_05788775.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109]
gi|260412679|gb|EEX05975.1| RNA polymerase sigma factor RpoD [Synechococcus sp. WH 8109]
Length = 312
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 51/130 (39%), Positives = 77/130 (59%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ L ++ S+ + + G T
Sbjct: 16 SDPVSWYLATIGRIPLLTPAEEIELGNQVQAMMSLTEDGSR-EFEDGELTT--------- 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R L L G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 66 -AQRRL---LRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 121
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 122 DPTRGYKFST 131
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ ++ P V++++ + + L+ L+ +E+ ++R+RFG+E + +L+E+G +
Sbjct: 223 GDLIADSSLDEPLEIVEQRIHHEQLGRWLSHLSEQEQHVLRMRFGLEGNERHTLAEIGRL 282
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 283 MEVSRERVRQVELKALRKLR 302
>gi|139436983|ref|ZP_01771143.1| Hypothetical protein COLAER_00117 [Collinsella aerofaciens ATCC
25986]
gi|133776630|gb|EBA40450.1| RNA polymerase sigma factor RpoD [Collinsella aerofaciens ATCC
25986]
Length = 454
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/199 (30%), Positives = 108/199 (54%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE +L +I+ + + KL++ E +E +A
Sbjct: 150 GDPVRMYLKEIGKVDLLTASEEVDLAMKIEAGL---EATEKLEAADAGE---LELTRA-- 201
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L + G +++ LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 202 -EIRRLTRIENVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 260
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
Q G +F+ ++ + + Q +R + ++ + + R ++D G+ +
Sbjct: 261 DYQKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 320
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G +S +RVR+++
Sbjct: 321 PEEIGAEMDMSADRVREIQ 339
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 54/87 (62%)
Query: 371 EKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 430
E+ Q G ++ +P + ++++ + +L L +ER ++ LRFG+ DG P++
Sbjct: 354 EEEDSQLGDFIEDSQAIVPPDAASFSMLQEQLTQVLDSLADRERKVIELRFGLVDGHPRT 413
Query: 431 LSEVGNIFGLSKERVRQLESRALYRLK 457
L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 414 LEEVGREFGVTRERIRQIESKTLAKLR 440
>gi|154498377|ref|ZP_02036755.1| hypothetical protein BACCAP_02366 [Bacteroides capillosus ATCC
29799]
gi|150272688|gb|EDM99866.1| RNA polymerase sigma factor RpoD [Pseudoflavonifractor capillosus
ATCC 29799]
Length = 441
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 51/143 (35%), Positives = 83/143 (58%), Gaps = 16/143 (11%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ----SQFGRE 302
L + F +DP+R++L LL DEE +L QD+ + K+++ ++ E
Sbjct: 126 LVDSFGIDDPVRMYLKEIGKVNLLNPDEEVQLA---QDMGAGDAAKARMAEIEAAEKRGE 182
Query: 303 PTLI--EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
P ++ E KA LK ++ G +++++L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 183 PIVLTPEEEKA-------LKKDIRRGEAAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 235
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG++GL+K+VEKF G +F+
Sbjct: 236 EGNLGLIKAVEKFDYTKGYKFST 258
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 48/62 (77%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++ER+RQ+E++AL +L
Sbjct: 368 LLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKL 427
Query: 457 KQ 458
+
Sbjct: 428 RH 429
>gi|405983613|ref|ZP_11041918.1| RNA polymerase sigma factor RpoD [Slackia piriformis YIT 12062]
gi|404388428|gb|EJZ83510.1| RNA polymerase sigma factor RpoD [Slackia piriformis YIT 12062]
Length = 392
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 79/297 (26%), Positives = 142/297 (47%), Gaps = 42/297 (14%)
Query: 169 KALSASKEAASLAENPKLNGAEFT--DISLTSSL-------GYPLEEVKQFSQPRFLERR 219
K SK+ + + L GA+ + D + +SL G P EE+K
Sbjct: 7 KTTEDSKKNKTAVDEASLAGADMSLEDEKIDASLSDEDLLEGIPEEELKA---------- 56
Query: 220 SKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELI 279
++ +V+ P+VT + R+++ S DP+R++L LLTA EE +L
Sbjct: 57 AEDAEVNLPKVTTRSSKVRRRSA---DTSVTMLTGDPVRMYLKEIGKVPLLTAAEEIDLA 113
Query: 280 AQIQDLI----RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
+I+ + LEK + + RE + + +G+ + ++LI
Sbjct: 114 MKIEAGVAATAELEKAEEEGIELERRERRRLTRVEQVGIDAK-------------QQLIE 160
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQK 395
ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF G +F+ ++ +
Sbjct: 161 ANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITR 220
Query: 396 QLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ Q +R + ++ + + ++ + E G+ S E+G GL+ ERVR+++
Sbjct: 221 AIADQSRTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGEKMGLTAERVREIQ 277
Score = 64.7 bits (156), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 51/82 (62%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G + +P + ++++ + +L L +ER ++ LRFG+EDG P +L EVG
Sbjct: 297 QLGDFIEDDAAIVPPDAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPHTLEEVG 356
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 357 RQFGVTRERIRQIESKTLAKLR 378
>gi|224002653|ref|XP_002290998.1| predicted protein [Thalassiosira pseudonana CCMP1335]
gi|220972774|gb|EED91105.1| predicted protein [Thalassiosira pseudonana CCMP1335]
Length = 345
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 48/138 (34%), Positives = 81/138 (58%), Gaps = 6/138 (4%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG-LSCRDLKSELHSGNSSREK 332
EE EL A+ Q+ +RL+K LQS+ GREPT EW A G ++ L+ L G ++ +
Sbjct: 29 EEKELGAKTQEAMRLQKMYEDLQSKHGREPTDDEWCAAAGKINMEALEQVLEEGIEAKNQ 88
Query: 333 LINANLRLVVHVAKQYQGRGI----SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
L+ +NLR+V V Y G+ + DL+Q+G+M L+++ EK++P+ G RF+ +
Sbjct: 89 LVASNLRMVQRVVNLYIRNGLGSEYNAGDLMQDGTMALIRAAEKYEPERGFRFSTYAMYW 148
Query: 389 PDISVQK-QLMRQHVRNL 405
+V++ Q M+ + N+
Sbjct: 149 IRSAVKRSQTMQSRIVNV 166
>gi|406956443|gb|EKD84538.1| hypothetical protein ACD_38C00204G0004 [uncultured bacterium]
Length = 363
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 53/190 (27%), Positives = 96/190 (50%), Gaps = 34/190 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + R + + KL + GREPT E AKA+G+
Sbjct: 206 VHMVETINRFNRTQRKLMQELGREPTPEEVAKALGID-------------------ETKA 246
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R ++ V+++ + D +E S G A+ G++ PD ++L+
Sbjct: 247 REIIKVSQEPTSLETPVGD--EEDS------------HLGDFIADQGLQ-PDEQATRELL 291
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ H+ +L L+P+E+ +++LRFG+EDGK ++L EVG FG+++ER+RQ+E++A+ +LK
Sbjct: 292 KIHLDEVLDSLSPREKRVLQLRFGLEDGKQRTLEEVGKEFGVTRERIRQIEAKAIRKLKH 351
Query: 459 SLGGKASYGY 468
K Y
Sbjct: 352 PTRAKKLRDY 361
Score = 72.0 bits (175), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 40/130 (30%), Positives = 75/130 (57%), Gaps = 13/130 (10%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV 386
++R+KLI+ANLRLVV +AK+Y GRG+SL DL++EG++GLM++V+K+ + G +F+
Sbjct: 125 KAARDKLISANLRLVVSIAKKYVGRGMSLLDLIEEGNIGLMRAVDKYDWRRGYKFSTYAT 184
Query: 387 EIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 438
++ + + Q H+ + N +R +++ E G+ + EV
Sbjct: 185 WWIRQAITRAIADQARTIRIPVHMVETINRFNRTQRKLMQ-----ELGREPTPEEVAKAL 239
Query: 439 GLSKERVRQL 448
G+ + + R++
Sbjct: 240 GIDETKAREI 249
>gi|358457491|ref|ZP_09167709.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357079327|gb|EHI88768.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 385
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 68/228 (29%), Positives = 113/228 (49%), Gaps = 25/228 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA+ E +L +I+ + F + A A G
Sbjct: 85 TDPVRVYLRDIGKVALLTAEGEVDLAKRIEAGV------------FAAH----KLATATG 128
Query: 314 LSC----RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ RDL++ GN ++ +L+ ANLRLVV VAK+Y RG+ D++QEG++GL+++
Sbjct: 129 ATTPRERRDLEAVEADGNIAKRRLVEANLRLVVSVAKRYVSRGMPFLDVVQEGNLGLIRA 188
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDG 426
VEKF G +F+ ++ + L Q +R + L+ R + V+ + E G
Sbjct: 189 VEKFDYAKGFKFSTYATWWIRQAISRSLADQARTIRIPVHLVEIINRLVRVQRQLVSELG 248
Query: 427 KPKSLSEVGNIFGLSKERVRQ--LESRALYRLKQSLGGKASYGYADLL 472
+ S E+ L+ +RVR+ + SR L +G AS + DL+
Sbjct: 249 RDPSPEELAAEMDLTPQRVREILMISREPVSLDTPIGEDASAHFGDLI 296
Score = 68.6 bits (166), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 52/72 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L ++ + +L L +ER +VRLR+G+ DG+P++L EVG+ FG+++ER+RQ+ES+AL +L
Sbjct: 312 LFQEQLDAVLRTLPDRERQVVRLRYGLTDGRPRTLEEVGHEFGVTRERIRQIESKALAKL 371
Query: 457 KQSLGGKASYGY 468
+ + +GY
Sbjct: 372 RHPSRSEKLHGY 383
>gi|309790033|ref|ZP_07684607.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG-6]
gi|308227888|gb|EFO81542.1| sigma-70 family RNA polymerase sigma factor [Oscillochloris
trichoides DG6]
Length = 358
Score = 79.7 bits (195), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 60/188 (31%), Positives = 96/188 (51%), Gaps = 41/188 (21%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L+++ + KL+ QF REPT E A ++GLS R +K +L+ A+
Sbjct: 206 LVQMRRAIYKLEQQFEREPTAQEIAHSMGLSLRKVK-----------RLLQAS------- 247
Query: 345 AKQYQGRGISLHDLL---QEGSMGLMKSVEKFKPQAGCRFANTGVEIP-DISVQKQLMRQ 400
+ +SL L QEG +G + A+ VE P D++ QK + Q
Sbjct: 248 -----AQPVSLEQPLNNEQEGRVGEV-------------LADENVETPMDLATQK-MFHQ 288
Query: 401 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 460
+ L L +ER I++LR+G+ DG+ ++L EVG FG+++ER RQ+E+ A+ RL+Q
Sbjct: 289 ELYAALNDLPDRERKILQLRYGLFDGQRRTLEEVGMAFGITRERTRQIEAEAMRRLRQPQ 348
Query: 461 GGKASYGY 468
G+ Y
Sbjct: 349 VGQRLQAY 356
Score = 68.9 bits (167), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 64/199 (32%), Positives = 99/199 (49%), Gaps = 20/199 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D ++++L LL+A+EE +L QI R KE Q Q E A G
Sbjct: 60 DSIQIYLHEIGQVALLSAEEERDLAMQI----RAGKEA---QMQLDTERF------ANGA 106
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ L+ + G+ +R +LI ANLRLVV VAK+Y ++ DL+QEG++GLM++VEKF
Sbjct: 107 ARAQLELTVARGHEARRRLIQANLRLVVSVAKKYINSPMAFMDLVQEGNIGLMRAVEKFD 166
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPK 429
G RF+ +V + + Q +R +L L R I +L E +
Sbjct: 167 HTKGNRFSTYATWWIRQAVSRSIAEQSRVIRLPVHLSESLVQMRRAIYKLEQQFE--REP 224
Query: 430 SLSEVGNIFGLSKERVRQL 448
+ E+ + GLS +V++L
Sbjct: 225 TAQEIAHSMGLSLRKVKRL 243
>gi|427701550|ref|YP_007044772.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
gi|427344718|gb|AFY27431.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Cyanobium gracile PCC 6307]
Length = 335
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 67/208 (32%), Positives = 109/208 (52%), Gaps = 14/208 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQ-FGREPTLIEWAKAI 312
D LR +L LL+ ++E L Q+Q+L+ LE+ + +L + G EP+ A
Sbjct: 24 GDSLRSYLRDIGRVPLLSHEQEITLGRQVQELMVLEELREELTLRSGGEEPSPELLAAEA 83
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GL+ L+ LH+G ++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEK
Sbjct: 84 GLTPALLRKRLHAGRRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEK 143
Query: 373 FKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIE 424
F P G +F+ + + + + H+ L L +R + + E
Sbjct: 144 FDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQ-----E 198
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLESRA 452
G+ +LSE+ L +E V+ L RA
Sbjct: 199 LGRTPTLSELALAVELPEEEVKDLLCRA 226
Score = 40.0 bits (92), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 37/61 (60%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V + ++ +R LL L + ++++R+GI+ +P SL+ + G+S+++ R LE RA
Sbjct: 259 VDGECLKGDLRALLEQLPELQGRVLKMRYGIDGEEPMSLTGIARTLGMSRDKTRNLERRA 318
Query: 453 L 453
L
Sbjct: 319 L 319
>gi|269956779|ref|YP_003326568.1| RpoD subfamily RNA polymerase sigma-70 subunit [Xylanimonas
cellulosilytica DSM 15894]
gi|269305460|gb|ACZ31010.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Xylanimonas
cellulosilytica DSM 15894]
Length = 549
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 76/129 (58%), Gaps = 4/129 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E++ SK + F R + + +
Sbjct: 242 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEEKLSKDFADFDRTKADADTRRLV-- 299
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL+ H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 300 --RDLQWIAHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 357
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 358 YTKGYKFST 366
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 46/181 (25%), Positives = 90/181 (49%), Gaps = 36/181 (19%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R++++ + GREPT E AK + ++ EK++
Sbjct: 393 MVEVINKLARVQRQ---MLQDLGREPTPEELAKELDMTP--------------EKVVEV- 434
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
++Y ISLH L E + G ++ +P +V L
Sbjct: 435 --------QKYGREPISLHTPLGEDG----------DSEFGDLIEDSEAVVPADAVSFTL 476
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ + +L L+ +E +V +RFG++DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 477 LQEQLHQVLDTLSEREAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 536
Query: 458 Q 458
Sbjct: 537 H 537
>gi|336117837|ref|YP_004572605.1| RNA polymerase sigma factor [Microlunatus phosphovorus NM-1]
gi|334685617|dbj|BAK35202.1| RNA polymerase sigma factor [Microlunatus phosphovorus NM-1]
Length = 317
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 65/220 (29%), Positives = 104/220 (47%), Gaps = 29/220 (13%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S + ++S+G D D + L+L G LLTA EE EL I+ + EK +S + + R
Sbjct: 5 STRNRVSDGIDGKDAVGLYLEGIAKTPLLTAAEEVELAKTIEVGLYAEKIRSGMVTSAER 64
Query: 302 -----EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+PT +L + G + ++ + ANLRLVV VA++Y + L
Sbjct: 65 GDNPSQPT-----------EEELDFLIEDGRRALQRFVTANLRLVVSVARKYGRSQMPLL 113
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTL 408
DL+QEG+ GL+++VEKF G +F+ G S+ + + +Q HV +
Sbjct: 114 DLVQEGNTGLIRAVEKFDYTKGFKFSTYGTWWVRQSISRGIAQQGRIVRLPVHVAEQVNQ 173
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ R + R R G+ L E+ + G+ ERV L
Sbjct: 174 VGAVRRTLER-RL----GRDPELEEIADEMGIDTERVMDL 208
Score = 50.1 bits (118), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 37/166 (22%), Positives = 78/166 (46%), Gaps = 33/166 (19%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
+ L+ + GR+P L E A +G+ E++++ ++ +++
Sbjct: 178 RRTLERRLGRDPELEEIADEMGIDT--------------ERVMD-----LIRYGREH--- 215
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNP 411
+SL ++EG + + +P G PD Q + ++L L+
Sbjct: 216 -VSLDAPVEEGGDTALGDLIAREPMPG----------PDEVYMDAEEHQRLESMLDELDE 264
Query: 412 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ +VR R+G+ DG+ L+++G ++G++ ERVRQ+E A+ +L+
Sbjct: 265 RSADVVRRRYGLVDGRQAKLADIGAVWGITAERVRQIERHAIAKLR 310
>gi|428315381|ref|YP_007113263.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria
nigro-viridis PCC 7112]
gi|428239061|gb|AFZ04847.1| RNA polymerase, sigma subunit, RpsC/SigC [Oscillatoria
nigro-viridis PCC 7112]
Length = 421
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 72/136 (52%), Gaps = 26/136 (19%)
Query: 271 TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN-- 327
A +E LIA+ LI + + +L +Q G +P+L WA G+ +LK + G
Sbjct: 104 VASQEEGLIARFVHLIEV---RDRLAAQLGHKPSLERWALTAGVGDVPELKRIMSEGKRQ 160
Query: 328 --------------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 161 WAELAEMTVETIERIQAEGVEAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 220
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 221 RAVEKFDPTRGYRFST 236
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E IS ++ LMR+ ++ LL L +ER ++ +RFG+ DG P SL+E+G LS
Sbjct: 330 LETDSISPEEMLMREALHRDLQQLLADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLS 389
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 390 RERVRQIEAKALQKLRQ 406
>gi|254432880|ref|ZP_05046583.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Cyanobium sp. PCC 7001]
gi|197627333|gb|EDY39892.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Cyanobium sp. PCC 7001]
Length = 331
Score = 79.3 bits (194), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 74/129 (57%), Gaps = 19/129 (14%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+ +L LLT EE EL Q+Q +++L E +K P+ + K +
Sbjct: 41 DPISWYLASIGREPLLTPAEEIELGNQVQAMMQL-LEAAK--------PSYSDHEKKL-- 89
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
L G S+++++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 90 --------LRIGKRSKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKFD 141
Query: 375 PQAGCRFAN 383
P G +F+
Sbjct: 142 PTRGYKFST 150
Score = 49.7 bits (117), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 50/80 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ E P V++ L + + + + L+ +ER +++LRFG+E +L+E+G
Sbjct: 242 GDLIADSSEEEPLDRVERGLNHEQLDHWMNHLSEQERHVLQLRFGLEGRDRHTLAEIGRQ 301
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 302 LDVSRERVRQVELKALRKLR 321
>gi|428769135|ref|YP_007160925.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium aponinum
PCC 10605]
gi|428683414|gb|AFZ52881.1| RNA polymerase, sigma subunit, RpsC/SigC [Cyanobacterium aponinum
PCC 10605]
Length = 399
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 36/75 (48%), Positives = 53/75 (70%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + +L++ L +G +++K+INANLRLVV +AK+YQ RG+ L DL+QEG++GL
Sbjct: 139 WANLAQVKLSELETILANGIKAKQKMINANLRLVVSIAKKYQNRGLELLDLIQEGTLGLE 198
Query: 368 KSVEKFKPQAGCRFA 382
K+VEKF G F+
Sbjct: 199 KAVEKFDHTKGYHFS 213
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 102/208 (49%), Gaps = 35/208 (16%)
Query: 266 TRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELH 324
TR + T L I + L +L+K + +L + GR T+ E AK + ++ DL+ L+
Sbjct: 225 TRAIATQARTIRLPIHITERLNQLKKVQRQLSQKLGRIATVDEIAKEMDMTSLDLRQFLN 284
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
R ISL MK E + + T
Sbjct: 285 QI-----------------------PRSISLE----------MKVGEDYNTEL-VELIET 310
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 444
P+ ++ + M++ +R++L+LLN +E+ I+RLR+G E+GK SLS+ +I LS+ER
Sbjct: 311 ESATPEENLMRVSMQKDLRSMLSLLNEREQKILRLRYGFENGKIYSLSDTASIMNLSRER 370
Query: 445 VRQLESRALYRLKQSLGGKASYGYADLL 472
VRQ++++A+ +L+Q K+ Y +++
Sbjct: 371 VRQIQAKAIQKLRQPNQKKSLRDYLEII 398
>gi|365839537|ref|ZP_09380773.1| RNA polymerase sigma factor RpoD, partial [Anaeroglobus geminatus
F0357]
gi|364564505|gb|EHM42269.1| RNA polymerase sigma factor RpoD, partial [Anaeroglobus geminatus
F0357]
Length = 398
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 50/147 (34%), Positives = 78/147 (53%), Gaps = 28/147 (19%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
+S +V + EG + +DP+R++L LL+A+EE L +I
Sbjct: 98 SSETVTVSLSVPEGVNIDDPVRMYLKEIGRVPLLSAEEEITLAKRI-------------- 143
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
E A G + E+ +GN +++KL +ANLRLVV +AK+Y GRG+
Sbjct: 144 ----------EAGGAEGATA----EEISTGNIAKKKLTDANLRLVVSIAKRYVGRGMLFL 189
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL+K+VEKF G +F+
Sbjct: 190 DLIQEGNLGLLKAVEKFDYSKGYKFST 216
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 50/69 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + L+++ + ++ + L +ER ++ LRFG++DG+P++L EVG F +++ER+RQ+
Sbjct: 318 PDDAASFILLKEQIEDVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQHFNVTRERIRQI 377
Query: 449 ESRALYRLK 457
E +AL +L+
Sbjct: 378 EGKALSKLR 386
>gi|75812393|ref|YP_320012.1| sigma-70 [Anabaena variabilis ATCC 29413]
gi|75705149|gb|ABA24823.1| Sigma-70 [Anabaena variabilis ATCC 29413]
Length = 314
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 41/117 (35%), Positives = 71/117 (60%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
+LT ++E L Q++ + +++ K L+ Q ++ + + A +G S ++ L G
Sbjct: 20 MLTPEQEITLARQVKQMTVVQQHKQVLEEQLHQQLNIQQLAADMGKSETEVFQILRLGQK 79
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTG 385
++EK+I ANLRLVV +AK+Y+ + DL+QEGS+GL K+VE+F P G +F+
Sbjct: 80 AKEKMIAANLRLVVAIAKKYRWSQLEFLDLVQEGSIGLQKAVERFDPNRGYKFSTCA 136
>gi|336179421|ref|YP_004584796.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia symbiont of
Datisca glomerata]
gi|334860401|gb|AEH10875.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia symbiont
of Datisca glomerata]
Length = 425
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 55/67 (82%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL++ + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 176 RDLQTLVRDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 235
Query: 377 AGCRFAN 383
G +F+
Sbjct: 236 KGYKFST 242
Score = 64.7 bits (156), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 43/61 (70%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + +L L P+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 353 MQDEIEGVLNSLTPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 412
Query: 458 Q 458
+
Sbjct: 413 K 413
>gi|411007263|ref|ZP_11383592.1| RNA polymerase principal sigma factor [Streptomyces globisporus
C-1027]
Length = 363
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL
Sbjct: 290 LLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRL 349
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 350 RDHAFADQLRGYLD 363
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 49/66 (74%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFAN 383
G +F+
Sbjct: 175 GYKFST 180
>gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces
roseosporus NRRL 11379]
Length = 363
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL
Sbjct: 290 LLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRL 349
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 350 RDHAFADQLRGYLD 363
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 49/66 (74%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFAN 383
G +F+
Sbjct: 175 GYKFST 180
>gi|427704523|ref|YP_007047745.1| sigma-70 family RNA polymerase sigma factor [Cyanobium gracile PCC
6307]
gi|427347691|gb|AFY30404.1| RNA polymerase sigma factor, sigma-70 family [Cyanobium gracile PCC
6307]
Length = 306
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 73/119 (61%), Gaps = 17/119 (14%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR--DL-KSELH 324
+LLT ++E L ++Q ++ L + ++ A G +C DL K L
Sbjct: 16 QLLTPEQELTLGRKVQAMVSLNERCAQ--------------AGGSGPACEFDDLEKRTLR 61
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+G ++++++ ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 62 NGERAKQQMVTANLRLVVNLAKRYQGKGLDLLDLIQEGTIGLTRAVEKFDPTRGHRFST 120
Score = 40.8 bits (94), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 35/53 (66%), Gaps = 3/53 (5%)
Query: 409 LNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER +V LRFG+ DG + ++L+EV S+E RQ+ RAL +L+++
Sbjct: 246 LTPKERTVVMLRFGL-DGSHEWRTLAEVARQLECSREYCRQVVQRALRKLRKT 297
>gi|291444398|ref|ZP_06583788.1| RNA polymerase principal sigma factor hrdA [Streptomyces
roseosporus NRRL 15998]
gi|291347345|gb|EFE74249.1| RNA polymerase principal sigma factor hrdA [Streptomyces
roseosporus NRRL 15998]
Length = 395
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+RQH+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL
Sbjct: 322 LLRQHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRL 381
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 382 RDHAFADQLRGYLD 395
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 49/66 (74%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 147 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 206
Query: 378 GCRFAN 383
G +F+
Sbjct: 207 GYKFST 212
>gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 344
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 53/185 (28%), Positives = 92/185 (49%), Gaps = 42/185 (22%)
Query: 276 FELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
FE+I+ R+ K + K GR PT E A + +S + + +K
Sbjct: 173 FEIIS------RISKMEQKFALHNGRNPTTEEIAAEMDMSAEKI--------TQIKKAAQ 218
Query: 336 ANLRLVVHVAKQYQGRGI--SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISV 393
A + L + +GR + +L D+ EG P+
Sbjct: 219 APVSLAQTMGGDNKGRTVEDTLVDVTAEG--------------------------PEKVS 252
Query: 394 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 453
K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL
Sbjct: 253 GKSLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKAL 312
Query: 454 YRLKQ 458
+LKQ
Sbjct: 313 RKLKQ 317
>gi|440755327|ref|ZP_20934529.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa TAIHU98]
gi|443663506|ref|ZP_21133143.1| RNA polymerase sigma factor, sigma-70 family protein [Microcystis
aeruginosa DIANCHI905]
gi|440175533|gb|ELP54902.1| RNA polymerase sigma factor rpoD [Microcystis aeruginosa TAIHU98]
gi|443331892|gb|ELS46531.1| RNA polymerase sigma factor, sigma-70 family protein [Microcystis
aeruginosa DIANCHI905]
Length = 217
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/78 (42%), Positives = 57/78 (73%)
Query: 381 FANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
F E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 128 FIEADGETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 187
Query: 441 SKERVRQLESRALYRLKQ 458
++ER+RQ+E++AL +L+
Sbjct: 188 TRERIRQIEAKALRKLRH 205
Score = 42.7 bits (99), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 25/33 (75%)
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RG+S DL+QEGS+GL+++ EKF + G +F+
Sbjct: 3 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 35
>gi|296139548|ref|YP_003646791.1| RpoD subfamily RNA polymerase sigma-70 subunit [Tsukamurella
paurometabola DSM 20162]
gi|296027682|gb|ADG78452.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella
paurometabola DSM 20162]
Length = 330
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 78/130 (60%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I+ + L +Q L++ K +
Sbjct: 32 DLVRVYLNGIGRTALLTAEDEVELAKRIE---------AGLYAQH-----LLDTKKRLSA 77
Query: 315 SC-RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RDL + G ++R+ L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 78 SKKRDLAFIVRDGQAARQHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 137
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 138 DYAKGFKFST 147
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 28/65 (43%), Positives = 49/65 (75%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V LM VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 253 VISTLMHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREV 312
Query: 453 LYRLK 457
+ +L+
Sbjct: 313 MSKLR 317
>gi|358458850|ref|ZP_09169055.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
gi|357077812|gb|EHI87266.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp. CN3]
Length = 422
Score = 79.3 bits (194), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/67 (50%), Positives = 53/67 (79%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDLK + G +++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 173 RDLKQLVRDGEAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 232
Query: 377 AGCRFAN 383
G +F+
Sbjct: 233 KGYKFST 239
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 29/61 (47%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L L+P+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 350 MQDEIDNVLGNLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 409
Query: 458 Q 458
+
Sbjct: 410 K 410
>gi|182438860|ref|YP_001826579.1| RNA polymerase principal sigma factor [Streptomyces griseus subsp.
griseus NBRC 13350]
gi|326779516|ref|ZP_08238781.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
griseus XylebKG-1]
gi|178467376|dbj|BAG21896.1| putative RNA polymerase principal sigma factor [Streptomyces
griseus subsp. griseus NBRC 13350]
gi|326659849|gb|EGE44695.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
griseus XylebKG-1]
Length = 363
Score = 79.0 bits (193), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+EDG+P++L E+G IFG+++ER+RQ+ES+ L RL
Sbjct: 290 LLREHLEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRL 349
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 350 RDHAFADQLRGYLD 363
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 49/66 (74%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFAN 383
G +F+
Sbjct: 175 GYKFST 180
>gi|419718484|ref|ZP_14245801.1| RNA polymerase sigma factor RpoD [Lachnoanaerobaculum saburreum
F0468]
gi|383305319|gb|EIC96687.1| RNA polymerase sigma factor RpoD [Lachnoanaerobaculum saburreum
F0468]
Length = 407
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 98/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 128 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 168
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 169 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 207
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 208 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 263
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N +++E+V ++
Sbjct: 264 -KLTLELGYEPSVTELANALDMTEEKVMEI 292
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 315 GDFVADSNVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 374
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 375 FKVTRERIRQIEAKALRKLRNPVRSK 400
>gi|365862000|ref|ZP_09401757.1| putative RNA polymerase principal sigma factor [Streptomyces sp.
W007]
gi|364008482|gb|EHM29465.1| putative RNA polymerase principal sigma factor [Streptomyces sp.
W007]
Length = 363
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 33/74 (44%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+EDG+P++L E+G IFG+++ER+RQ+ES+ L RL
Sbjct: 290 LLREHLEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRL 349
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 350 RDHAFADQLRGYLD 363
Score = 71.6 bits (174), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 49/66 (74%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFAN 383
G +F+
Sbjct: 175 GYKFST 180
>gi|312200424|ref|YP_004020485.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia sp. EuI1c]
gi|311231760|gb|ADP84615.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EuI1c]
Length = 403
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/227 (30%), Positives = 113/227 (49%), Gaps = 25/227 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+R++L LLTA+ E +L +I+ + L + E + E + L
Sbjct: 104 DPVRMYLASIGKTPLLTAEGEVDLAKRIE---------AGLFAGHKLETAVEEMSPGQRL 154
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
DL + G + +L+ ANLRLVV +AK+Y GRG+ D++QEG++GL+++VEKF
Sbjct: 155 ---DLIAVERDGQVAARQLVEANLRLVVSIAKRYAGRGMLFLDVVQEGNLGLIRAVEKFD 211
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLR--FGIEDGK 427
G +F+ ++ + L Q VR +L+ LLN +VRLR +E G+
Sbjct: 212 YTKGYKFSTYATWWVRQAITRALADQSRTVRLPVHLVELLN----QLVRLRRELLMELGR 267
Query: 428 PKSLSEVGNIFGLSKERVRQLE--SRALYRLKQSLGGKASYGYADLL 472
+ E+ G++ RV +L+ SR L +G A DL+
Sbjct: 268 EATREELATALGVTANRVDELQRISREPVSLDSPVGDDADTELGDLI 314
Score = 56.6 bits (135), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 42/64 (65%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
+L L +ER +++LRFG+ DG+ +L E+G FGL++ER+RQ+E R L +L+ +A
Sbjct: 338 VLRALPDRERRVIQLRFGLADGQVHTLEEIGREFGLTRERIRQIEQRTLAKLRHPARSEA 397
Query: 465 SYGY 468
Y
Sbjct: 398 LRSY 401
>gi|88809137|ref|ZP_01124646.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
gi|88787079|gb|EAR18237.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Synechococcus sp. WH 7805]
Length = 313
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 75/130 (57%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q L++L ++ S + L + +
Sbjct: 17 SDPISWYLATIGRIPLLTPAEEIELGNQVQKLMQLTEDGS-----IAADSELFDSKQ--- 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + G ++++++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 69 ------RRLIRVGQRAKQRMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 48.9 bits (115), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ +E P V++++ + + ++ L+ +E+ ++ LRFG+ + +L+E+G +
Sbjct: 224 GDLIADSSLEEPLDRVEQRIHHEQLGRWMSHLSDQEQHVLTLRFGLNGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 LDVSRERVRQVELKALRKLR 303
>gi|429218921|ref|YP_007180565.1| sigma-70 family RNA polymerase sigma factor [Deinococcus
peraridilitoris DSM 19664]
gi|429129784|gb|AFZ66799.1| RNA polymerase sigma factor, sigma-70 family [Deinococcus
peraridilitoris DSM 19664]
Length = 489
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 78/130 (60%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R +L LLT EE L +I++ E+ ++KL++ L + A+
Sbjct: 186 NDPVRQYLHEIGRVPLLTLAEEISLARRIEEG---EEARAKLEADL----DLDDRAR--- 235
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L+ ++ G ++R+ LI ANLRLVV +AK+Y RG+ DL+QEG+ GL+++VEKF
Sbjct: 236 ---RSLQRQVEDGQAARQGLIEANLRLVVSIAKKYSNRGMGFLDLIQEGNQGLIRAVEKF 292
Query: 374 KPQAGCRFAN 383
+ + G +F+
Sbjct: 293 EYRRGYKFST 302
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 45/69 (65%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + + ++ + + L LN +E ++RLR G+ DG+ +L EVG F +++ER+RQ+
Sbjct: 406 PAENTDRTMLSEELEKALDKLNEREAMVLRLRKGLVDGREHTLEEVGQYFNVTRERIRQI 465
Query: 449 ESRALYRLK 457
E++AL +LK
Sbjct: 466 ENKALRKLK 474
>gi|159899067|ref|YP_001545314.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159892106|gb|ABX05186.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 386
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 47/131 (35%), Positives = 74/131 (56%), Gaps = 14/131 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA EE +L K++ TL++ +
Sbjct: 86 DDPVRMYLQEIGQVPLLTAAEEVDL-------------AKKMEVAHAANDTLLQDDGMLE 132
Query: 314 LSCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
S R LK + +G ++R+ LI ANLRLVV +AK+Y G+++ DL+QEG++GLM++VEK
Sbjct: 133 HSDRISLKRHIDTGRAARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEK 192
Query: 373 FKPQAGCRFAN 383
F G +F+
Sbjct: 193 FDYTKGHKFST 203
Score = 72.4 bits (176), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 50/177 (28%), Positives = 87/177 (49%), Gaps = 33/177 (18%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
KLQ REPT E A+A+G++ ++ L +
Sbjct: 243 KLQQTMQREPTPEEIAEAMGITASKVRRTLEA---------------------------- 274
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 413
S+H L E +G ++ + + G + V P + ++R+ + +L L +E
Sbjct: 275 SMHPLSLEMPVG-----QEGEGRMGDFIEDDRVSTPVDAAAMTMLREQIEEVLQKLPERE 329
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
R I++LR+G++DG+ ++L EVG FG+++ER+RQ+E+ AL +L+ GK GY D
Sbjct: 330 RKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD 386
>gi|325673633|ref|ZP_08153324.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC
33707]
gi|325555654|gb|EGD25325.1| RNA polymerase principal sigma factor SigA [Rhodococcus equi ATCC
33707]
Length = 448
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 67/204 (32%), Positives = 100/204 (49%), Gaps = 24/204 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D L+ +L LLTADEE EL I+ + S+ R P E
Sbjct: 148 DGLQWYLKRIRRVDLLTADEEVELSRSIEAGLYASHLLEAYPSRTTR-PAPAER------ 200
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL+ + G S+R ++I ANLRLVV A+ Y+GRG+ + DL+QEG+ GL+++VEKF
Sbjct: 201 --RDLRQIVQDGRSARTRMIEANLRLVVSTAQNYEGRGLDMLDLVQEGNTGLIRAVEKFD 258
Query: 375 PQAGCRFANTGV---------EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIED 425
+ G +F+ I D S +L V +L + VR+ IE
Sbjct: 259 YRLGNKFSTYATWWIRQAITRGIADKSRTIRLPVHVVEDLSRMTT------VRVEGEIEL 312
Query: 426 GKPKSLSEVGNIFGLSKERVRQLE 449
G+ + +EV L+ E+VR+L+
Sbjct: 313 GRALTDAEVAQRADLTLEKVRELD 336
Score = 53.5 bits (127), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 50/82 (60%)
Query: 377 AGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 436
AG + P ++ + +R+ + +L L +E +++LR G+ DG P++L E+G
Sbjct: 355 AGLDIEDDCAHDPYEALHRADVRERIDIVLETLTEREAGVMKLRHGLVDGVPRTLEEIGK 414
Query: 437 IFGLSKERVRQLESRALYRLKQ 458
++ +++ER+RQ+E++ L L++
Sbjct: 415 VYKVTRERIRQIEAKTLQLLRE 436
>gi|315652381|ref|ZP_07905370.1| RNA polymerase sigma factor rpoD [Lachnoanaerobaculum saburreum DSM
3986]
gi|315485355|gb|EFU75748.1| RNA polymerase sigma factor rpoD [Lachnoanaerobaculum saburreum DSM
3986]
Length = 410
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 98/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 131 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 171
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 172 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 210
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 266
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N +++E+V ++
Sbjct: 267 -KLTLELGYEPSVTELANALDMTEEKVMEI 295
Score = 75.1 bits (183), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 318 GDFVADSNVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 377
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 378 FKVTRERIRQIEAKALRKLRNPVRSK 403
>gi|302866072|ref|YP_003834709.1| sigma-70 family RNA polymerase [Micromonospora aurantiaca ATCC
27029]
gi|315502628|ref|YP_004081515.1| RpoD subfamily RNA polymerase sigma-70 subunit [Micromonospora sp.
L5]
gi|302568931|gb|ADL45133.1| RNA polymerase sigma factor, sigma-70 family [Micromonospora
aurantiaca ATCC 27029]
gi|315409247|gb|ADU07364.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Micromonospora
sp. L5]
Length = 328
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 64/229 (27%), Positives = 116/229 (50%), Gaps = 36/229 (15%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L G KLLTA +E EL +I+ + E++ +
Sbjct: 28 TDLVRAYLNGIGRTKLLTAAQEVELSKRIEAGLFAEEKLA-------------------- 67
Query: 314 LSCRDLKSELHS--------GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
+C + +ELH+ G ++++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++G
Sbjct: 68 -TCTPVSAELHADLALIAAEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLG 126
Query: 366 LMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLRFG 422
L+++VEKF G +F+ ++ + + Q +R + ++ R + VR
Sbjct: 127 LIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEQVNRMVRVRRELS 186
Query: 423 IEDGKPKSLSEVGNIFGLSKERVRQLES--RALYRLKQSLG--GKASYG 467
+ G+ ++SEV + + +V +L S R L Q++G G+++ G
Sbjct: 187 VTLGREPTVSEVATALEIPEFQVIELISYDREPVSLDQAVGEDGESALG 235
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 45/60 (75%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R VR +L L+ +E+ ++RLRFG++DG+ ++L EVG FGLS+ER+RQ+E L +L+
Sbjct: 256 LRNEVRIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLR 315
>gi|325283594|ref|YP_004256135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus
proteolyticus MRP]
gi|324315403|gb|ADY26518.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Deinococcus
proteolyticus MRP]
Length = 487
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 50/133 (37%), Positives = 76/133 (57%), Gaps = 18/133 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQD--LIRLE-KEKSKLQSQFGREPTLIEWAK 310
NDP+R +L LLT +EE L +I+D R+E +EK + GR
Sbjct: 184 NDPVRQYLHEIGRVPLLTLEEEIALARRIEDGEFARVELEEKGEELDDRGR--------- 234
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
R L+ + G ++R+ LI ANLRLVV +AK+Y GRG++ DL+QEG+ GL+++V
Sbjct: 235 ------RALQRRMEDGAAARQGLIEANLRLVVSIAKKYTGRGLNFLDLIQEGNQGLIRAV 288
Query: 371 EKFKPQAGCRFAN 383
EKF+ + +F+
Sbjct: 289 EKFEYRRRYKFST 301
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 47/80 (58%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + ++ P + K L+ + + L L +E +++ R G+ DG+ +L EVG
Sbjct: 394 GDFIPDDNLDSPVDNAAKTLLSEELEKALGKLTEREAMVLKFRKGLVDGREHTLEEVGQR 453
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +LK
Sbjct: 454 FNVTRERIRQIENKALRKLK 473
>gi|300781025|ref|ZP_07090879.1| RNA polymerase principal sigma factor SigB [Corynebacterium
genitalium ATCC 33030]
gi|300532732|gb|EFK53793.1| RNA polymerase principal sigma factor SigB [Corynebacterium
genitalium ATCC 33030]
Length = 330
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 72/129 (55%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A+EE EL QI+ L +Q + E +A
Sbjct: 31 DLVRVYLNGIGKTALLNAEEEVELAQQIE---------VGLYAQHLLDDPDTELTRA--- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 KSRDLKILAKQGRKARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 138
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 139 YSKGFKFST 147
Score = 58.5 bits (140), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 42/56 (75%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ +++ L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E + +L+
Sbjct: 262 IHDIINGLEQREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMSKLR 317
>gi|118472772|ref|YP_887083.1| RNA polymerase sigma factor SigB [Mycobacterium smegmatis str. MC2
155]
gi|399987098|ref|YP_006567447.1| RNA polymerase sigma factor sigB [Mycobacterium smegmatis str. MC2
155]
gi|441207679|ref|ZP_20973619.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
gi|118174059|gb|ABK74955.1| sigma factor SigB [Mycobacterium smegmatis str. MC2 155]
gi|399231659|gb|AFP39152.1| RNA polymerase sigma factor sigB [Mycobacterium smegmatis str. MC2
155]
gi|440627862|gb|ELQ89667.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
Length = 319
Score = 79.0 bits (193), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 78/130 (60%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L++ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLDTKKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 ARKRDLQAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155]
Length = 319
Score = 79.0 bits (193), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 78/130 (60%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L++ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLDTKKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 ARKRDLQAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|159903877|ref|YP_001551221.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9211]
gi|159889053|gb|ABX09267.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9211]
Length = 313
Score = 79.0 bits (193), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 50/139 (35%), Positives = 74/139 (53%), Gaps = 32/139 (23%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ L ++ S
Sbjct: 17 SDPISWYLSTIGRVPLLTPAEEIELGNQVQVMMNLTEDGSI------------------- 57
Query: 314 LSCRDLKSE---------LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSM 364
D+KSE + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+
Sbjct: 58 ----DVKSEEFTSHQRRLIRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSL 113
Query: 365 GLMKSVEKFKPQAGCRFAN 383
GL ++VEKF P G +F+
Sbjct: 114 GLERAVEKFDPTRGYKFST 132
Score = 53.9 bits (128), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 55/80 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ +E P V++++ ++ + LT L+ +E+ +++LRFG+E + +L+E+G +
Sbjct: 224 GDLIADSSLEEPLDKVEQRIHQEQLGRWLTHLSEQEQHVLKLRFGLEGNERHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E ++L +L+
Sbjct: 284 LQVSRERVRQVELKSLRKLR 303
>gi|359767854|ref|ZP_09271636.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans NBRC
16320]
gi|359314770|dbj|GAB24469.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans NBRC
16320]
Length = 339
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/149 (32%), Positives = 79/149 (53%), Gaps = 13/149 (8%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T ++R A ++ L D +R++L G LL A++E EL QI+
Sbjct: 21 TTSTRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE----------- 69
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
+ + L + RDL + + G ++R L+ ANLRLVV +AK+Y GRG+
Sbjct: 70 --AGLYAKHVLATRKRLSAAKKRDLNTVVREGEAARAHLLEANLRLVVSLAKRYTGRGMP 127
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L DL+QEG++GL++++EKF G +F+
Sbjct: 128 LLDLIQEGNLGLIRAMEKFDYAKGFKFST 156
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 261 AVIAGLLHSDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 320
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 321 VMGKLRQG 328
>gi|148239078|ref|YP_001224465.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp. WH
7803]
gi|147847617|emb|CAK23168.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. WH 7803]
Length = 308
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 17/119 (14%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR---DLKSELH 324
+LLT ++E + ++Q ++ L E+ L A G +C D K +
Sbjct: 16 QLLTPEQELTMGRKVQAMVSL-TERCHL-------------AGGSGPACEYSDDEKRTIK 61
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G ++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+N
Sbjct: 62 RGEKAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFSN 120
Score = 41.6 bits (96), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 409 LNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER +V LRFG++ ++L+EV S+E RQ+ RAL +L+++
Sbjct: 246 LTPKERTVVMLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLRKT 297
>gi|329902595|ref|ZP_08273157.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium
IMCC9480]
gi|327548742|gb|EGF33384.1| RNA polymerase sigma factor RpoS [Oxalobacteraceae bacterium
IMCC9480]
Length = 334
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 44/125 (35%), Positives = 74/125 (59%), Gaps = 5/125 (4%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 94 ARQVMIEHNLRLVVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWW 153
Query: 389 PDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 443
S+++ +M Q VR +++ LN R L DGK S+ ++ ++ G S E
Sbjct: 154 IRQSIERAIMNQARTVRLPVHVIRELNQVLRAKYHLEALHHDGKDASIDDIAHLTGRSAE 213
Query: 444 RVRQL 448
V+ +
Sbjct: 214 DVQDI 218
Score = 55.1 bits (131), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 41/63 (65%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 461
VR+ L L+ K+R I+ RFG+ED P +L + G+++ERVRQ++ AL +LK++L
Sbjct: 265 VRDWLARLSDKQRLIITRRFGLEDDDPATLEALAAEIGVTRERVRQVQQEALIKLKRALA 324
Query: 462 GKA 464
+
Sbjct: 325 TRG 327
>gi|219124053|ref|XP_002182327.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217406288|gb|EEC46228.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 317
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 72/130 (55%), Gaps = 16/130 (12%)
Query: 270 LTADEEFELIAQIQDL---IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
LT +EE + QI+ L + L ++ LQ PT EWA A G+S +L+ L G
Sbjct: 1 LTKEEEAQYSFQIRTLSAALALREQLVTLQDGMHVHPTHQEWAAACGVSAVELRRVLDEG 60
Query: 327 NSSREKLINANLRLVVHVAKQY---------QGRGI----SLHDLLQEGSMGLMKSVEKF 373
+R L+ ANL LV +AK+ GRG+ +L DL+QEG++GLMK+ E+F
Sbjct: 61 QQARAALVAANLGLVTALAKRQLSTLQTATEAGRGVGTILTLQDLIQEGTLGLMKAAERF 120
Query: 374 KPQAGCRFAN 383
+P+ G RF+
Sbjct: 121 EPERGWRFST 130
Score = 51.2 bits (121), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 46/70 (65%), Gaps = 1/70 (1%)
Query: 389 PDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
P+ V+ Q +R + +++T +L E+ ++R RFG+EDG S+ E G+S++R+R
Sbjct: 236 PEEDVEAQALRLDLEHVMTQVLTDVEQNVLRRRFGLEDGTCWSVEETARQLGVSRDRIRL 295
Query: 448 LESRALYRLK 457
+E+RAL +L+
Sbjct: 296 VETRALNKLR 305
>gi|402312660|ref|ZP_10831584.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium ICM7]
gi|400369118|gb|EJP22121.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium ICM7]
Length = 410
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 98/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 131 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 171
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 172 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 210
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 266
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N +++E+V ++
Sbjct: 267 -KLTLELGYEPSVTELANALDMTEEKVMEI 295
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 56/80 (70%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 318 GDFVADANVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 377
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 378 FKVTRERIRQIEAKALRKLR 397
>gi|404483026|ref|ZP_11018251.1| RNA polymerase sigma factor RpoD [Clostridiales bacterium OBRC5-5]
gi|404344116|gb|EJZ70475.1| RNA polymerase sigma factor RpoD [Clostridiales bacterium OBRC5-5]
Length = 410
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 98/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 131 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 171
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 172 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 210
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 266
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N +++E+V ++
Sbjct: 267 -KLTLELGYEPSVTELANALDMTEEKVMEI 295
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 56/80 (70%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 318 GDFVADANVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 377
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 378 FKVTRERIRQIEAKALRKLR 397
>gi|378717650|ref|YP_005282539.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans VH2]
gi|375752353|gb|AFA73173.1| RNA polymerase sigma factor SigB [Gordonia polyisoprenivorans VH2]
Length = 339
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/149 (32%), Positives = 79/149 (53%), Gaps = 13/149 (8%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T ++R A ++ L D +R++L G LL A++E EL QI+
Sbjct: 21 TTSTRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE----------- 69
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
+ + L + RDL + + G ++R L+ ANLRLVV +AK+Y GRG+
Sbjct: 70 --AGLYAKHVLATRKRLSAAKKRDLNTVVREGEAARAHLLEANLRLVVSLAKRYTGRGMP 127
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L DL+QEG++GL++++EKF G +F+
Sbjct: 128 LLDLIQEGNLGLIRAMEKFDYAKGFKFST 156
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 261 AVIAGLLHSDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 320
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 321 VMGKLRQG 328
>gi|145224529|ref|YP_001135207.1| RNA polymerase sigma factor SigB [Mycobacterium gilvum PYR-GCK]
gi|145217015|gb|ABP46419.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium gilvum
PYR-GCK]
Length = 329
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L +Q L+ K +G
Sbjct: 31 DLVRVYLNGIGKTALLTAADEVELAKRIE---------AGLYAQH-----LLATRKRLGE 76
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 77 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 136
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 137 DYAKGFKFST 146
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 251 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 310
Query: 452 ALYRLK 457
+ +L+
Sbjct: 311 VMAKLR 316
>gi|126695941|ref|YP_001090827.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9301]
gi|126542984|gb|ABO17226.1| Putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. MIT 9301]
Length = 307
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 60/200 (30%), Positives = 106/200 (53%), Gaps = 18/200 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT + E + ++Q+++ L ++ Q G+ P E+++A + ++ G
Sbjct: 15 QLLTPERELTMGRKVQEMVVL---VNRCQEAGGKGPA-CEYSEA-------ERKKIKIGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 64 KAKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYW 123
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE-----DGKPKSLSEVGNIFGLSK 442
+ + L Q R + +N E+ + +LR G P S E+ ++K
Sbjct: 124 WIRQGLNRALSTQS-RTIRIPVNINEK-LTKLRSAKSKLMQLKGIPPSTDELAEEMKITK 181
Query: 443 ERVRQLESRALYRLKQSLGG 462
E + +L S L + SL G
Sbjct: 182 EEIDELLSCELRSITVSLQG 201
>gi|315444860|ref|YP_004077739.1| sigma-70 family RNA polymerase sigma factor [Mycobacterium gilvum
Spyr1]
gi|315263163|gb|ADT99904.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium gilvum
Spyr1]
Length = 319
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L +Q L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLTAADEVELAKRIE---------AGLYAQH-----LLATRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYAKGFKFST 136
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|373468298|ref|ZP_09559555.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
gi|371766389|gb|EHO54644.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium oral
taxon 082 str. F0431]
Length = 410
Score = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 64/210 (30%), Positives = 98/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + QD G E
Sbjct: 131 LLEGVGTEDPVRMYLKEIGTVPLLTANEELELAKRKQD---------------GDE---- 171
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 172 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 210
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 266
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ N +++E+V ++
Sbjct: 267 -KLTLELGYEPSVTELANALDMTEEKVMEI 295
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 57/80 (71%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 318 GDFVADSNVLTPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 377
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 378 FKVTRERIRQIEAKALRKLR 397
>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 = 78.6 bits (192), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 41/113 (36%), Positives = 71/113 (62%), Gaps = 3/113 (2%)
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA--IGLSCRDLKSELHSGNSSR 330
DE + + ++Q + LE + +L+ E L W A +G + ++L+ L ++
Sbjct: 390 DEARDRVLRMQKKVALEPDNKELKEHLA-ELELRMWMTADEMGDAYQELRKWLREARRAK 448
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +F+
Sbjct: 449 DEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFST 501
Score = 65.5 bits (158), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 88/180 (48%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
+I I L+R++K+ L ++GREPT E A+ I L ++S L K+
Sbjct: 528 MIETINKLMRVQKQ---LVQEYGREPTPEEIAEEIHLPVERVRSVL--------KMAQQP 576
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+ L V S D +++ K+ E +A F
Sbjct: 577 ISLQAPVG---DSDDTSFGDFIED------KAAENPMEEASFSF---------------- 611
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ ++++L L +ER ++ RFG+ DG P++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 612 LKEKIKDVLDTLTDREREVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAKALRKLR 671
>gi|297625160|ref|YP_003706594.1| RpoD subfamily RNA polymerase sigma-70 subunit [Truepera
radiovictrix DSM 17093]
gi|297166340|gb|ADI16051.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Truepera
radiovictrix DSM 17093]
Length = 446
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 66/213 (30%), Positives = 100/213 (46%), Gaps = 47/213 (22%)
Query: 176 EAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHET 235
E A LAE+ L+ EF ++ L P +E+ V + E
Sbjct: 90 EIADLAEDEVLDEDEFDEVDALGDLDEPEDEL----------------------VRDREE 127
Query: 236 YNSR-KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQD----LIRLEK 290
+R +A +LS NDP+R +L LLT +EE L +I++ RL++
Sbjct: 128 IEARAEAMAGSRLS----TNDPVRQYLHEIGRVSLLTLEEEISLARRIEEGEAAQKRLDE 183
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
E L + R LK + G +R+ LI ANLRLVV +AK+Y G
Sbjct: 184 EGDSLPER----------------EQRALKRIVEDGEMARQHLIEANLRLVVSIAKKYTG 227
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
RG+S DL+QEG+ GL+++VEKF+ + +F+
Sbjct: 228 RGLSFLDLIQEGNQGLIRAVEKFEYRRRYKFST 260
Score = 56.2 bits (134), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 47/80 (58%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + VE P K L+ + + L L +E +++ R G+ DG+ +L EVG
Sbjct: 353 GDFIPDDNVESPVDQASKTLLSEELEKALDKLTERESMVLKFRKGLVDGREHTLEEVGAH 412
Query: 438 FGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+E++AL +LK
Sbjct: 413 FGVTRERIRQIENKALRKLK 432
>gi|218442621|ref|YP_002380941.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424]
gi|218174979|gb|ACK73711.1| RNA polymerase, sigma 32 subunit, RpoH [Cyanothece sp. PCC 7424]
Length = 308
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 70/114 (61%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL + +E +L +IQ +L+ + + Q + G++ ++ ++ L + G
Sbjct: 23 LLNSSQEIDLGQKIQKWQKLKHQFVQFQKKTGKKTSVFDFCSDFQLEEAEFYLVYEEGQQ 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ +L+ NLRLV+++AK+Y GRG+S DLLQEG++GL+++ E F+P G +F+
Sbjct: 83 AKNQLVQGNLRLVINLAKKYLGRGLSFEDLLQEGNIGLIRAAELFEPSKGYKFS 136
>gi|346310634|ref|ZP_08852649.1| hypothetical protein HMPREF9452_00518 [Collinsella tanakaei YIT
12063]
gi|345897589|gb|EGX67506.1| hypothetical protein HMPREF9452_00518 [Collinsella tanakaei YIT
12063]
Length = 443
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 108/199 (54%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA +E +L +I+ + + +KL++ E IE +A
Sbjct: 139 GDPVRMYLKEIGKVDLLTAADEVDLAMKIEAGL---EASNKLEAADAGE---IELTRA-- 190
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G +++ LI+ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 191 -EMRRLTRVEQVGLEAKQALISANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 249
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
+ G +F+ ++ + + Q +R + ++ + + R ++D G+ +
Sbjct: 250 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 309
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G +S +RVR+++
Sbjct: 310 PEEIGAEMDMSADRVREIQ 328
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 52/82 (63%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G ++ +P + ++++ + +L L +ER ++ LRFG+ DG P++L EVG
Sbjct: 348 QLGDFIEDSQAVVPPEAASFSMLQEQLTQVLDSLADRERKVIELRFGLVDGHPRTLEEVG 407
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 408 REFGVTRERIRQIESKTLAKLR 429
>gi|78212423|ref|YP_381202.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Synechococcus sp. CC9605]
gi|78196882|gb|ABB34647.1| type II alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. CC9605]
Length = 312
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ ++ S+ + + G T
Sbjct: 16 SDPVSWYLATIGRIPLLTPAEEIELGNQVQAMMAFTEDGSR-EIEDGELTT--------- 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R L L G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 66 -AQRRL---LRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 121
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 122 DPTRGYKFST 131
Score = 51.6 bits (122), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 54/80 (67%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ ++ P V++++ + + L+ L+ +E+ ++R+RFG+E + +L+E+G +
Sbjct: 223 GDLIADSSLDEPLDIVEQRIHHEQLGRWLSHLSEQEQHVLRMRFGLEGNERHTLAEIGRL 282
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 283 MEVSRERVRQVELKALRKLR 302
>gi|152980760|ref|YP_001353824.1| RNA polymerase sigma factor RpoS [Janthinobacterium sp. Marseille]
gi|151280837|gb|ABR89247.1| RNA polymerase nonessential primary-like sigma factor
[Janthinobacterium sp. Marseille]
Length = 345
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 76/129 (58%), Gaps = 6/129 (4%)
Query: 326 GN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
GN ++R+K+I NLRLVV +AK Y RG+ L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 101 GNFAARQKMIEHNLRLVVSIAKHYINRGVILLDLIEEGNLGLMRAIDKFEPERGFRFSTY 160
Query: 385 GVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
S+++ +M Q VR +++ LN R L DGK + ++ ++
Sbjct: 161 ATWWIRQSIERAIMNQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVD 220
Query: 440 LSKERVRQL 448
S E V+ +
Sbjct: 221 RSVEDVQDI 229
Score = 47.4 bits (111), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 41/72 (56%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + M V + L L K+R ++ RFG+++ P +L + +++ERVRQ+
Sbjct: 263 PDALAEHNEMTVLVHDWLEKLPDKQRLVITRRFGLDNDDPATLEALAAEMHVTRERVRQI 322
Query: 449 ESRALYRLKQSL 460
+ AL +LK+SL
Sbjct: 323 QQEALVKLKRSL 334
>gi|379709871|ref|YP_005265076.1| RNA polymerase sigma factor SigB [Nocardia cyriacigeorgica GUH-2]
gi|374847370|emb|CCF64440.1| RNA polymerase sigma factor SigB [Nocardia cyriacigeorgica GUH-2]
Length = 322
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L +Q L+E K +
Sbjct: 24 DLVRVYLNGIGRTALLTAADEVELAKRIE---------AGLYAQH-----LLETGKRLSA 69
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 70 ARKRDLAVIVREGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 129
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 130 DYAKGFKFST 139
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 244 AVIAGLLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 303
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 304 VMSKLRKG 311
>gi|332298226|ref|YP_004440148.1| RpoD subfamily RNA polymerase sigma-70 subunit [Treponema
brennaborense DSM 12168]
gi|332181329|gb|AEE17017.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema
brennaborense DSM 12168]
Length = 332
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 62/195 (31%), Positives = 100/195 (51%), Gaps = 15/195 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQD-LIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DPL L+L KLL+ EE A IQ+ R+ + KS L P E I
Sbjct: 32 DPLSLYLKQISRYKLLSVQEEQATAAAIQEHKSRIRQLKSGLLEPAENSPAYEE----ID 87
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL + K+I ANLRLVV +AK+YQ RG+ L DL+ EG++GL+++V++F
Sbjct: 88 RLERDLLV-------LKNKMIQANLRLVVSIAKRYQHRGLGLLDLIDEGNIGLIEAVDRF 140
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
+P CRF+ G+ ++ K L + +R + +LN +C + ++ G+ +
Sbjct: 141 EPARNCRFSTYGIWWIRQAIIKSLADKGRVIRVPVHMLNTINKCFFMAKLLTQEYGREPT 200
Query: 431 LSEVGNIFGLSKERV 445
+E+ ++ E+V
Sbjct: 201 TAELARFLCVTNEKV 215
Score = 55.5 bits (132), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 41/54 (75%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+L L+ +E I+RLR+G++ P++L+E GN+ G+++ERVRQ++ + L +L++
Sbjct: 268 VLNQLSEREMSIIRLRYGLDGKAPRTLTETGNVLGITRERVRQIQEKTLKKLRE 321
>gi|78184480|ref|YP_376915.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CC9902]
gi|78168774|gb|ABB25871.1| possible type II alternative RNA polymerase sigma factor
[Synechococcus sp. CC9902]
Length = 309
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 44/119 (36%), Positives = 71/119 (59%), Gaps = 17/119 (14%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR---DLKSELH 324
+LLT ++E L ++Q ++ + EP LI A G SC + + +
Sbjct: 17 QLLTPEQELMLGRKVQAMVAIT------------EPCLI--AGGTGPSCEYNDNQRFVIR 62
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G ++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 63 RGERAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFST 121
>gi|312898762|ref|ZP_07758151.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis
F0359]
gi|310620193|gb|EFQ03764.1| RNA polymerase sigma factor RpoD [Megasphaera micronuciformis
F0359]
Length = 437
Score = 78.6 bits (192), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 52/148 (35%), Positives = 79/148 (53%), Gaps = 30/148 (20%)
Query: 237 NSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
+S +V LS EG + +DP+R++L LL+A+EE L +I+
Sbjct: 135 DSENETVNVNLSVPEGVNIDDPVRMYLKEIGRVPLLSAEEEITLAKRIE----------- 183
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
S G P E+ +GN +++KL +ANLRLVV +AK+Y GRG+
Sbjct: 184 AGSAEGATP-----------------EEVSAGNIAKKKLTDANLRLVVSIAKRYVGRGML 226
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
DL+QEG++GL+K+VEKF G +F+
Sbjct: 227 FLDLIQEGNLGLLKAVEKFDYSKGYKFS 254
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/69 (37%), Positives = 50/69 (72%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + L+++ + ++ + L +ER ++ LRFG++DG+P++L EVG F +++ER+RQ+
Sbjct: 357 PDDAASFILLKEQIEDVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQHFNVTRERIRQI 416
Query: 449 ESRALYRLK 457
E +AL +L+
Sbjct: 417 EGKALSKLR 425
>gi|221633247|ref|YP_002522472.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159]
gi|221156052|gb|ACM05179.1| RNA polymerase sigma factor rpoD [Thermomicrobium roseum DSM 5159]
Length = 340
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 52/187 (27%), Positives = 97/187 (51%), Gaps = 33/187 (17%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
+ R + ++L + GR+PT E A+A+ + EK+ +V
Sbjct: 187 ITRYHRTTTQLAQELGRQPTPEEIAEAMSVQP--------------EKIAQ-----IVRA 227
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
A+ R +SL L E + G A+ + P+ ++ LMR+ +
Sbjct: 228 AQ----RAVSLDQPLSEED----------ETSLGDLIADELAQSPEELAEESLMRRDIAE 273
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
+L +L P+ER +++LR+G+ DG+P++L+EVG++ G+S+ERVRQ+E+ AL +L++ +
Sbjct: 274 ILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENEALRKLRRIARERL 333
Query: 465 SYGYADL 471
+ YA +
Sbjct: 334 AEYYAGI 340
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 46/130 (35%), Positives = 65/130 (50%), Gaps = 40/130 (30%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DPLRL+L LLT +EE EL +I+ E + LQ
Sbjct: 67 SDPLRLYLRDIAEAPLLTPEEEVELAKRIK-----EGDTEALQ----------------- 104
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + +NLRLVV +AK+Y GRG+SL DL+QEG++GLM++VEKF
Sbjct: 105 ------------------RFVRSNLRLVVSIAKRYVGRGLSLLDLIQEGNIGLMRAVEKF 146
Query: 374 KPQAGCRFAN 383
+ G RF+
Sbjct: 147 DWRRGYRFST 156
>gi|73541783|ref|YP_296303.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha JMP134]
gi|72119196|gb|AAZ61459.1| RNA polymerase, sigma 38 subunit, RpoS [Ralstonia eutropha JMP134]
Length = 391
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
S+R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 150 SARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 209
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 210 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 269
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 270 DEVQDV 275
Score = 47.8 bits (112), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 309 PDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 368
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 369 QQEALVKLKRHFASQG 384
>gi|373106378|ref|ZP_09520681.1| RNA polymerase sigma factor RpoD [Stomatobaculum longum]
gi|371652753|gb|EHO18161.1| RNA polymerase sigma factor RpoD [Stomatobaculum longum]
Length = 413
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 62/210 (29%), Positives = 97/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE EL + Q G E
Sbjct: 135 LLEGVGTEDPVRMYLKEIGTVPLLTAEEEMELARR---------------KQAGDE---- 175
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+++KLI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 176 ---------------------KAKKKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 214
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF P+ G + + SV + L Q H+ + ++ +R
Sbjct: 215 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 270
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ +++E+V ++
Sbjct: 271 -KLTLELGYEPSVAELAKALDMTEEKVMEI 299
Score = 74.7 bits (182), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 52/185 (28%), Positives = 98/185 (52%), Gaps = 33/185 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + ++ K + KL + G EP++ E AKA+ ++ EK++
Sbjct: 256 VHMVETINKMSKMQRKLTLELGYEPSVAELAKALDMT--------------EEKVME--- 298
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
++ +A++ SL E +G E+ G A+ V P+ +V+ ++
Sbjct: 299 --IMQIARE----PASL-----ETPIG-----EEDDSNLGDFVADNNVLTPEDNVESVML 342
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 343 REHIEALLGDLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRN 402
Query: 459 SLGGK 463
+ K
Sbjct: 403 PVRSK 407
>gi|108799144|ref|YP_639341.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MCS]
gi|119868259|ref|YP_938211.1| RNA polymerase sigma factor SigB [Mycobacterium sp. KMS]
gi|126434752|ref|YP_001070443.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JLS]
gi|108769563|gb|ABG08285.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS]
gi|119694348|gb|ABL91421.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp.
KMS]
gi|126234552|gb|ABN97952.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp.
JLS]
Length = 319
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLNTKKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 SRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|68536171|ref|YP_250876.1| RNA polymerase sigma factor SigB [Corynebacterium jeikeium K411]
gi|260578869|ref|ZP_05846775.1| RNA polymerase principal sigma factor SigB [Corynebacterium
jeikeium ATCC 43734]
gi|68263770|emb|CAI37258.1| RNA polymerase sigma factor B [Corynebacterium jeikeium K411]
gi|258603016|gb|EEW16287.1| RNA polymerase principal sigma factor SigB [Corynebacterium
jeikeium ATCC 43734]
Length = 343
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 73/129 (56%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I+ L S++ L K
Sbjct: 45 DLVRVYLNGIGKTALLTAEDEVELSKRIE---------VGLYSEY----LLSNAEKLTRA 91
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 92 KKRDLKVLAREGKAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 151
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 152 YTKGFKFST 160
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 46/68 (67%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L VR +L L +E+ +++LR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 265 AVVASLRHSDVRAVLGTLEEREQDVIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIERE 324
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 325 VMAKLREG 332
>gi|385678070|ref|ZP_10051998.1| RNA polymerase sigma factor SigB [Amycolatopsis sp. ATCC 39116]
Length = 306
Score = 78.2 bits (191), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 48/134 (35%), Positives = 76/134 (56%), Gaps = 15/134 (11%)
Query: 251 FDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAK 310
F+ DP+R +L G LLT +EE L +I+ + L +Q L+ +
Sbjct: 6 FEPADPVRAYLTGISRAGLLTIEEEVTLAKRIE---------AGLYAQH-----LLATTR 51
Query: 311 AIGLSCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ R DL + G ++ +L+ ANLRLVV +AK+Y GRG+SL DL+QEG++GL+++
Sbjct: 52 VLDPQRRADLLTIAEEGREAKNRLLEANLRLVVSIAKRYTGRGMSLLDLIQEGNLGLIRA 111
Query: 370 VEKFKPQAGCRFAN 383
VEK+ G +F+
Sbjct: 112 VEKYDYTPGFKFST 125
Score = 47.0 bits (110), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 35/53 (66%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
P + ++R+ + LL+ L P+E+ ++RLR G++DG+ ++L EVG G++
Sbjct: 225 PGVPASYHVLRREIDELLSTLKPREQQVIRLRCGLDDGRQRTLEEVGRELGVT 277
>gi|50955189|ref|YP_062477.1| ECF subfamily RNA polymerase sigma-70 factor [Leifsonia xyli subsp.
xyli str. CTCB07]
gi|50951671|gb|AAT89372.1| RNA polymerase, sigma-70 family factor [Leifsonia xyli subsp. xyli
str. CTCB07]
Length = 308
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 52/134 (38%), Positives = 77/134 (57%), Gaps = 21/134 (15%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R +L LLTA++E L +I+ + L E+ A G
Sbjct: 13 NDPVRDYLNSIGRTWLLTAEDEVSLAKRIEVGV-LAGER---------------LATRPG 56
Query: 314 LSCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
LS R+ K ELH G + E+ I ANLRLVV +AK+Y GRG+++ DL+QEG++GL+++
Sbjct: 57 LSPRE-KRELHVLSDDGKRAFERFIEANLRLVVSIAKRYAGRGLAVMDLIQEGNLGLVRA 115
Query: 370 VEKFKPQAGCRFAN 383
VEKF + G +F+
Sbjct: 116 VEKFDYRTGNKFST 129
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/179 (27%), Positives = 88/179 (49%), Gaps = 33/179 (18%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + +L++ + L + GR PTL E A A L+ +E+H S + ++
Sbjct: 154 VHTVEKIDKLDRIRRDLGGELGRTPTLEEIADAASLT----PAEVHKLQMSDSETVS--- 206
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
L V V + G L DL+++G P P V+ +
Sbjct: 207 -LAVPVG---ENEGAELGDLIEDGD----------APG------------PSERVEVEFR 240
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ + L L ++ +VR+RFG++ KP +L EVG ++G+++ERVRQLE+R+L RL+
Sbjct: 241 HRDLEERLRELPLRDAKVVRMRFGLDGRKPMTLDEVGAVYGITRERVRQLETRSLKRLR 299
>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 = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 71/130 (54%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +I+ F E K
Sbjct: 92 SDPVRMYLKEIGKVPLLTAEEEVDLAKRIE------------AGLFASEKLAAATRKTSP 139
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 140 QMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 199
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 200 DYTKGYKFST 209
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 319 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 378
Query: 457 K 457
+
Sbjct: 379 R 379
>gi|309791990|ref|ZP_07686468.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG-6]
gi|308225984|gb|EFO79734.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Oscillochloris
trichoides DG6]
Length = 396
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 73/250 (29%), Positives = 127/250 (50%), Gaps = 30/250 (12%)
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
ET ++ + + LS+ D +RL+L LLTA++E L I+ R +K +
Sbjct: 76 EETISTVVIDLDEGLSDAL-LGDSVRLYLREIGQVPLLTAEQEKRLAQTIE---RGQKAQ 131
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
K++ +PT A+A+ +L+ ++ GN +R+++ ANLRLVV +AK+Y+ RG
Sbjct: 132 VKIKDL---DPT---SAEAV-----ELRRQIEKGNDARQQMAAANLRLVVSIAKRYRDRG 180
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRN 404
+ L DL+QEGS+GL++++EKF G +F+ ++ + L Q H+
Sbjct: 181 LPLLDLIQEGSLGLLRAIEKFDHDKGFKFSTYATWWIKQALSRALADQSRLVRLPVHLGE 240
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL--YRLKQSLGG 462
L + R + + R G E P SE+ + +S+E++R+L A L +G
Sbjct: 241 TLNRIQAARRQLTQ-RLGRE---PYD-SELADELSMSQEKLRELRRTAQDPVSLATPVGE 295
Query: 463 KASYGYADLL 472
+A AD +
Sbjct: 296 EADSTLADFI 305
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 49/74 (66%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
++RQ + L L +ER ++ LR+G+ DG+P++L EVG FG+++ERVRQ+E +AL +L
Sbjct: 321 MLRQQIATALDQLTERERKVLELRYGLTDGQPRTLEEVGKAFGVTRERVRQIEVKALRKL 380
Query: 457 KQSLGGKASYGYAD 470
+ GK Y D
Sbjct: 381 RHPRLGKLLKDYLD 394
>gi|335045942|ref|ZP_08538965.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 108
str. F0425]
gi|363897360|ref|ZP_09323899.1| hypothetical protein HMPREF9624_00461 [Oribacterium sp. ACB7]
gi|333759728|gb|EGL37285.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 108
str. F0425]
gi|361958857|gb|EHL12154.1| hypothetical protein HMPREF9624_00461 [Oribacterium sp. ACB7]
Length = 385
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 50/137 (36%), Positives = 70/137 (51%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE+ L ++ Q G E
Sbjct: 106 LLEGIGTEDPVRMYLKEIGTVPLLTAEEEYSL---------------AMKKQAGDE---- 146
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 147 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 185
Query: 367 MKSVEKFKPQAGCRFAN 383
+K VEKF P+ G + +
Sbjct: 186 IKGVEKFDPEKGFKLST 202
Score = 74.7 bits (182), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 57/80 (71%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 293 GDFVADANVLSPEGNVESVMLREHIDSLLDDLKERERQVIVLRFGLEDGHPRTLEEVGKE 352
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 353 FNVTRERIRQIEAKALRKLR 372
>gi|257063660|ref|YP_003143332.1| RNA polymerase sigma factor RpoD [Slackia heliotrinireducens DSM
20476]
gi|256791313|gb|ACV21983.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Slackia
heliotrinireducens DSM 20476]
Length = 394
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 66/208 (31%), Positives = 105/208 (50%), Gaps = 30/208 (14%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWA 309
DP+R++L LLT EE +L +I+ + LEK + + RE +
Sbjct: 90 GDPVRMYLKEIGKVPLLTPSEEVDLAMKIEAGVAATAELEKAEEEGVELDRRERRRLTRV 149
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ +GL +D +LI ANLRLVV +AK+Y GRG+ DL+QEG++GL+++
Sbjct: 150 EQVGLDAKD-------------QLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRA 196
Query: 370 VEKFKPQAGCRFANTGV------EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGI 423
VEKF G +F+ I+ Q + +R V + T+ +VR++ +
Sbjct: 197 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI-----NKLVRIQRQL 251
Query: 424 --EDGKPKSLSEVGNIFGLSKERVRQLE 449
E G+ S E+G GLS ERVR+++
Sbjct: 252 LQELGRDPSPEEIGEKMGLSAERVREIQ 279
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 88/180 (48%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L+R+++ +L + GR+P+ E + +GLS ++ +KL
Sbjct: 237 MVETINKLVRIQR---QLLQELGRDPSPEEIGEKMGLSAERVRE--------IQKLSQEP 285
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+ L + ++ + L D +++ S P FA +
Sbjct: 286 VSLETPIGEEEDSQ---LGDFIEDDS--------AIVPVDAASFA--------------M 320
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M++ + +L L +ER +V RFG+EDG+P +L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 321 MQEQLSKVLDTLGERERNVVIKRFGLEDGQPHTLEEVGREFGVTRERIRQIESKTLAKLR 380
>gi|417749572|ref|ZP_12397964.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium
subsp. paratuberculosis S397]
gi|336458794|gb|EGO37751.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium
subsp. paratuberculosis S397]
Length = 319
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G + LL A E EL +I+ + E L+E K +G
Sbjct: 21 DLVRVYLNGIGKKALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLEAVVRDGQAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMSKLRNG 308
>gi|323456432|gb|EGB12299.1| hypothetical protein AURANDRAFT_12561, partial [Aureococcus
anophagefferens]
Length = 233
Score = 78.2 bits (191), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 46/138 (33%), Positives = 73/138 (52%), Gaps = 13/138 (9%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L G S+R+ L+ N+RLVV VAK+Y G G+ L DL+QEGS+GLM++ KF P GC+F+
Sbjct: 1 LRDGRSARQALVATNMRLVVSVAKRYTGLGLGLSDLVQEGSLGLMRAATKFDPARGCKFS 60
Query: 383 NTGVE------IPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 434
+ ++ Q +L+R HV L L R F G+ S E+
Sbjct: 61 TYACWWIQQAILRAVAFQSRLIRLPMHVHQDLAKLKRGTR-----DFTAAHGREPSDGEL 115
Query: 435 GNIFGLSKERVRQLESRA 452
+ ++ ++R++ + A
Sbjct: 116 AELLEMTPAKLRKVRAAA 133
Score = 42.4 bits (98), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 42/69 (60%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ +V+ L+ + + + L+ E+ ++ LR+G+EDG P + ++V SKE VR+ E
Sbjct: 153 ETAVELALLHEDLHAAMDDLDADEKRVISLRYGLEDGVPCTPAQVAASCAESKEWVRRCE 212
Query: 450 SRALYRLKQ 458
RA+ +L++
Sbjct: 213 MRAIRKLRK 221
>gi|33240812|ref|NP_875754.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus subsp. marinus str. CCMP1375]
gi|33238341|gb|AAQ00407.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)
[Prochlorococcus marinus subsp. marinus str. CCMP1375]
Length = 313
Score = 78.2 bits (191), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 50/135 (37%), Positives = 72/135 (53%), Gaps = 24/135 (17%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK-----EKSKLQSQFGREPTLIEW 308
DP+ +L LLT EE EL Q+Q ++ L + EK+K + R I
Sbjct: 17 TDPISWYLATIGRVPLLTPAEEIELGNQVQVMMNLTEDGMVNEKTKKFTSHERRSIRI-- 74
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL +
Sbjct: 75 -----------------GRRAKERMMKANLRLVVSVAKKYQGKGLELLDLVQEGSLGLER 117
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF P G +F+
Sbjct: 118 AVEKFDPTRGYKFST 132
Score = 53.5 bits (127), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 53/80 (66%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ VE P V++ + ++ + LT L+ +E+ +++LRFG+E +L+E+G +
Sbjct: 224 GDLIADSSVEEPLDKVEQSIHQEQLGRWLTHLSEQEQHVLKLRFGLEGNDRHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E ++L +L+
Sbjct: 284 LEVSRERVRQVELKSLRKLR 303
>gi|157412994|ref|YP_001483860.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9215]
gi|157387569|gb|ABV50274.1| Putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. MIT 9215]
Length = 307
Score = 78.2 bits (191), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 60/200 (30%), Positives = 106/200 (53%), Gaps = 18/200 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT + E + ++Q+++ L ++ Q G+ P E+++A + ++ G
Sbjct: 15 QLLTPERELTMGRKVQEMVVL---VNRCQEAGGKGPA-CEYSEA-------ERKKIKIGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 64 KAKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYW 123
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE-----DGKPKSLSEVGNIFGLSK 442
+ K L Q R + +N E+ + +LR G P + E+ ++K
Sbjct: 124 WIRQGLNKALSTQS-RTIRIPVNINEK-LTKLRSAKSKLMQLKGIPPTSDELSEEMKITK 181
Query: 443 ERVRQLESRALYRLKQSLGG 462
E + +L S L + SL G
Sbjct: 182 EEIEELLSCELRSITVSLQG 201
>gi|302670285|ref|YP_003830245.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus
B316]
gi|302394758|gb|ADL33663.1| RNA polymerase sigma factor RpoD [Butyrivibrio proteoclasticus
B316]
Length = 521
Score = 78.2 bits (191), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 46/135 (34%), Positives = 77/135 (57%), Gaps = 10/135 (7%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G DP+R++L LLTAD+E +L ++ EKE + + +
Sbjct: 214 DGISIEDPVRMYLKEIGKVPLLTADQEIDLAQAMEAGADAEKELADDK----------DV 263
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
K ++L + ++ G ++++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+K
Sbjct: 264 NKLSDARKKELNAIIYEGEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 323
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF + G +F+
Sbjct: 324 AVEKFDFRKGFKFST 338
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 56/93 (60%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + V +P + L+++ + +L L +E+ ++RLRFG++DG+ ++L EVG
Sbjct: 429 GDFIQDDNVPVPADAAAFTLLKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKE 488
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
F +++ER+RQ+E++AL +L+ + Y D
Sbjct: 489 FNVTRERIRQIEAKALRKLRHPSRSRKLKDYLD 521
>gi|407647092|ref|YP_006810851.1| RNA polymerase sigma factor SigB [Nocardia brasiliensis ATCC
700358]
gi|407309976|gb|AFU03877.1| RNA polymerase sigma factor SigB [Nocardia brasiliensis ATCC
700358]
Length = 322
Score = 78.2 bits (191), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L +Q L+E K +
Sbjct: 24 DLVRVYLNGIGRTALLTAADEVELAKRIE---------AGLYAQH-----LLETGKRLSA 69
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 70 TRKRDLALIVREGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 129
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 130 DYAKGFKFST 139
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 244 AVIAGLLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 303
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 304 VMSKLRKG 311
>gi|334117906|ref|ZP_08491997.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
gi|333461015|gb|EGK89623.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Microcoleus
vaginatus FGP-2]
Length = 421
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 71/136 (52%), Gaps = 26/136 (19%)
Query: 271 TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN-- 327
A +E LI + LI + + +L +Q G +P+L WA G+ +LK + G
Sbjct: 104 VASQEEGLIGRFVHLIEV---RDRLAAQLGHKPSLERWALTAGVGDVPELKRIMSEGKRQ 160
Query: 328 --------------------SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 161 WAELAEMTVEAIERVQAEGVEAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 220
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF P G RF+
Sbjct: 221 RAVEKFDPTRGYRFST 236
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 52/77 (67%), Gaps = 4/77 (5%)
Query: 386 VEIPDISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
+E IS ++ LMR+ ++ LL L +ER ++ +RFG+ DG P SL+E+G LS
Sbjct: 330 LETDSISPEEMLMREALHRDLQQLLADLTSRERDVILMRFGLGDGHPYSLAEIGRALDLS 389
Query: 442 KERVRQLESRALYRLKQ 458
+ERVRQ+E++AL +L+Q
Sbjct: 390 RERVRQIEAKALQKLRQ 406
>gi|377562738|ref|ZP_09792106.1| RNA polymerase sigma factor SigB [Gordonia sputi NBRC 100414]
gi|377530035|dbj|GAB37271.1| RNA polymerase sigma factor SigB [Gordonia sputi NBRC 100414]
Length = 336
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 52/158 (32%), Positives = 80/158 (50%), Gaps = 13/158 (8%)
Query: 226 SKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDL 285
S V + +T SR A ++ L D +R++L G LL A++E EL QI+
Sbjct: 9 STSTVASGDTTPSRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE-- 66
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
+ + L + RDL + G +R L+ ANLRLVV +A
Sbjct: 67 -----------AGLYAKHVLATRKRLSAAKKRDLTIVVREGEVARAHLLEANLRLVVSLA 115
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
K+Y GRG+ L DL+QEG++GL++++EKF G +F+
Sbjct: 116 KRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFST 153
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V LM VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 258 AVIAGLMHTDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 317
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 318 VMGKLRQG 325
>gi|261856530|ref|YP_003263813.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothiobacillus
neapolitanus c2]
gi|261836999|gb|ACX96766.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halothiobacillus
neapolitanus c2]
Length = 343
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/146 (32%), Positives = 74/146 (50%), Gaps = 40/146 (27%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP+RL+L ET +LLTA+EE ++Q G E
Sbjct: 69 DPVRLYLRDVETERLLTAEEEV---------------IYSRRAQSGDE------------ 101
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
S+R+K+I NLRLV+ +A++Y RG+ L DL++EG++GLM++VEKF
Sbjct: 102 -------------SARQKMIVCNLRLVIKIARRYMNRGLDLLDLIEEGNIGLMRAVEKFD 148
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ 400
P+ G RF+ ++++ LM Q
Sbjct: 149 PERGFRFSTYATWWIRQTIERGLMNQ 174
Score = 46.6 bits (109), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD +Q + + L+ L K+R ++ R+G+ + +L EVGN G+++ERVRQ+
Sbjct: 259 PDELLQDAGVHGFLDQLIAQLESKQREVLVRRYGLRGYETHTLEEVGNHLGVTRERVRQI 318
Query: 449 ESRALYRLKQSLGGKAS 465
+ A+ RLK SL KA
Sbjct: 319 QLEAVRRLK-SLAKKAG 334
>gi|430806163|ref|ZP_19433278.1| RNA polymerase sigma factor RpoS [Cupriavidus sp. HMR-1]
gi|429501543|gb|EKZ99874.1| RNA polymerase sigma factor RpoS [Cupriavidus sp. HMR-1]
Length = 349
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
S+R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 108 SARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 167
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 168 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 227
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 228 DEVQDV 233
Score = 48.1 bits (113), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 267 PDQEVAHRELENLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 326
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 327 QQEALVKLKRHFASQG 342
>gi|33862619|ref|NP_894179.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9313]
gi|33634535|emb|CAE20521.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
[Prochlorococcus marinus str. MIT 9313]
Length = 313
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ L ++ S K
Sbjct: 17 SDPVSWYLTTIGRIPLLTPAEEIELGNQVQTMMSLTQDGSVAPDD-----------KEFT 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R + + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 66 THQRRM---IRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 49.3 bits (116), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ + P V++++ + + L+ L+ +E+ +++LRFG+E +L+E+G +
Sbjct: 224 GDLIADSSLGEPLDKVEQRIHHEQLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 MEVSRERVRQVELKALRKLR 303
>gi|383819214|ref|ZP_09974490.1| RNA polymerase sigma factor [Mycobacterium phlei RIVM601174]
gi|383337185|gb|EID15566.1| RNA polymerase sigma factor [Mycobacterium phlei RIVM601174]
Length = 472
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 76/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q L + ++ K+ +Q R+ ++
Sbjct: 170 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQKLAEMTEKGEKIPTQLRRD---MQ 226
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 227 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 273
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 274 RAVEKFDYTKGYKFST 289
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 394 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 453
Query: 452 ALYRLK 457
+ +L+
Sbjct: 454 TMSKLR 459
>gi|72381853|ref|YP_291208.1| type II alternative sigma factor, sigma70 family [Prochlorococcus
marinus str. NATL2A]
gi|72001703|gb|AAZ57505.1| possible type II alternative RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL2A]
Length = 307
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/116 (37%), Positives = 73/116 (62%), Gaps = 11/116 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT ++E L ++Q ++ L + + Q G P E++ A K + +G
Sbjct: 15 ELLTPEQELTLGREVQAMVALNE---RCQQAGGHGPE-CEYSSAE-------KKKFKAGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P+ G RF+
Sbjct: 64 RAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFST 119
Score = 40.8 bits (94), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 409 LNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER I+ LRFG++ ++L+EV S+E RQ+ RAL +L+++
Sbjct: 245 LTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLRKT 296
>gi|441508327|ref|ZP_20990251.1| RNA polymerase sigma factor SigB [Gordonia aichiensis NBRC 108223]
gi|441447355|dbj|GAC48212.1| RNA polymerase sigma factor SigB [Gordonia aichiensis NBRC 108223]
Length = 336
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 52/158 (32%), Positives = 80/158 (50%), Gaps = 13/158 (8%)
Query: 226 SKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDL 285
S V +T SR A ++ L D +R++L G LL A++E EL QI+
Sbjct: 9 STSTVAPGDTTPSRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE-- 66
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
+ + L + RDL + G ++R L+ ANLRLVV +A
Sbjct: 67 -----------AGLYAKHVLATRKRLSAAKKRDLAIVVREGETARSHLLEANLRLVVSLA 115
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
K+Y GRG+ L DL+QEG++GL++++EKF G +F+
Sbjct: 116 KRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFST 153
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V LM VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 258 AVIAGLMHTDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 317
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 318 VMGKLRQG 325
>gi|406980501|gb|EKE02092.1| RNA polymerase sigma factor [uncultured bacterium]
Length = 348
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/91 (47%), Positives = 58/91 (63%), Gaps = 16/91 (17%)
Query: 298 QFGREPTLI-----EWAKAIG-LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
Q GR P LI E AK+I +C + ++EKL+NANLRLVV +AK+Y GR
Sbjct: 77 QIGRIPLLIPDEEIELAKSIKETNC----------SIAKEKLVNANLRLVVSIAKKYIGR 126
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
G+S DL+QEG+MGLM++ EKF G +F+
Sbjct: 127 GLSFLDLIQEGNMGLMRAAEKFDYAKGYKFS 157
Score = 62.8 bits (151), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 52/71 (73%), Gaps = 1/71 (1%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIED-GKPKSLSEVGNIFGLSKERVRQ 447
PD V ++ + +R +L L+ KER ++ +RFG++D G K+L E+G+ +G+S+ER+RQ
Sbjct: 261 PDTRVIQENLFDEIRKILGQLSNKERDVLIMRFGLDDDGNKKTLEEIGSRYGVSRERIRQ 320
Query: 448 LESRALYRLKQ 458
+E+RA+ +LK+
Sbjct: 321 IENRAISKLKK 331
>gi|383823563|ref|ZP_09978753.1| RNA polymerase sigma factor SigB [Mycobacterium xenopi RIVM700367]
gi|383338842|gb|EID17201.1| RNA polymerase sigma factor SigB [Mycobacterium xenopi RIVM700367]
Length = 319
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q+ L+E K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQY-----LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R+L + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRELAMVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ +VRLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 TVIAELLHTDIRSVLATLDEREQQVVRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMAKLRHG 308
>gi|374853415|dbj|BAL56324.1| RNA polymerase primary sigma factor [uncultured candidate division
OP1 bacterium]
gi|374857281|dbj|BAL60134.1| RNA polymerase primary sigma factor [uncultured candidate division
OP1 bacterium]
Length = 334
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 51/146 (34%), Positives = 84/146 (57%), Gaps = 14/146 (9%)
Query: 318 DLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
+L S + +G +R++LI ANLRLVV +AK+Y GRG+S DL+QEG++GLM++VEKF P
Sbjct: 79 ELASRVVAGEKCARDELITANLRLVVSIAKKYMGRGLSFLDLIQEGNLGLMRAVEKFDPT 138
Query: 377 AGCRFANTGVE------IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR--FGIEDGKP 428
G +F+ I+ Q + +R V + T+ R + RL+ E G
Sbjct: 139 KGFKFSTYATWWIRQAITRAIADQSRTIRIPVHMIETV-----RELQRLKKEHVQEHGAA 193
Query: 429 KSLSEVGNIFGLSKERVRQLESRALY 454
L + + G+ +E+++Q+E+ + Y
Sbjct: 194 PDLEALSSELGIPQEKIKQVENVSQY 219
Score = 58.2 bits (139), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 45/70 (64%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + + + + L L +E+ I++LR+G+EDG P++L +V +F +++ERVRQ+
Sbjct: 247 PTKETYRMFLVEELDRALNQLTDREKEILKLRYGLEDGHPRTLKDVARVFNITRERVRQI 306
Query: 449 ESRALYRLKQ 458
E +AL +LK
Sbjct: 307 EIKALEKLKH 316
>gi|357021635|ref|ZP_09083866.1| RNA polymerase sigma factor SigB [Mycobacterium thermoresistibile
ATCC 19527]
gi|356479383|gb|EHI12520.1| RNA polymerase sigma factor SigB [Mycobacterium thermoresistibile
ATCC 19527]
Length = 319
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A EE EL +I+ + L +Q L++ K +G
Sbjct: 21 DLVRVYLNGIGKTALLDAAEEVELAKRIE---------AGLYAQH-----LLKTKKRLGQ 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLEAIVRDGEEARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVIAELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMAKLRHG 308
>gi|317969234|ref|ZP_07970624.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus
sp. CB0205]
Length = 311
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 73/119 (61%), Gaps = 17/119 (14%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC--RDL-KSELH 324
+LLT ++E L ++Q +++L + + A +G +C D+ K +
Sbjct: 16 QLLTPEQELMLGRKVQAMVQLHERCAM--------------AGGVGEACSYNDIEKRTMR 61
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 62 VGERAKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFST 120
Score = 45.8 bits (107), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 49/183 (26%), Positives = 79/183 (43%), Gaps = 42/183 (22%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVV 342
+ L RL K++L + G P + A A+GL ++ E L+ LR V
Sbjct: 149 EKLTRLRAAKARLMQRNGMAPNSQQLATALGLPLDEI-----------EDLLGCELRSVT 197
Query: 343 HVAKQYQGRGISLHDLLQEGS-----MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+SL +++ S + ++ S E P C A + + Q L
Sbjct: 198 ----------VSLQGIVKSKSDPTELVDVLPS-EDLPPMERCELAERNAAVWKLLDQSNL 246
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKERVRQLESRALYR 455
PKER +V LRFG+ DG + ++L+EV + G S+E RQ+ RAL +
Sbjct: 247 ------------TPKERTVVMLRFGL-DGSHEWRTLAEVARLLGCSREYCRQVVQRALRK 293
Query: 456 LKQ 458
L++
Sbjct: 294 LRK 296
>gi|124023660|ref|YP_001017967.1| type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
gi|123963946|gb|ABM78702.1| Type II alternative RNA polymerase sigma factor, sigma-70 family
protein [Prochlorococcus marinus str. MIT 9303]
Length = 313
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 72/130 (55%), Gaps = 14/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+ +L LLT EE EL Q+Q ++ L ++ S K
Sbjct: 17 SDPVSWYLTTIGRIPLLTPAEEIELGNQVQTMMSLTQDGSVAPDD-----------KEFT 65
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R + + G ++E+++ ANLRLVV VAK+YQG+G+ L DL+QEGS+GL ++VEKF
Sbjct: 66 THQRRM---IRIGRRAKERMMKANLRLVVSVAKKYQGKGLELLDLIQEGSLGLERAVEKF 122
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 123 DPTRGYKFST 132
Score = 49.3 bits (116), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ + P V++++ + + L+ L+ +E+ +++LRFG+E +L+E+G +
Sbjct: 224 GDLIADSSLGEPLDKVEQRIHHEQLGRWLSHLSEQEQHVLKLRFGLETHDRHTLAEIGRL 283
Query: 438 FGLSKERVRQLESRALYRLK 457
+S+ERVRQ+E +AL +L+
Sbjct: 284 MEVSRERVRQVELKALRKLR 303
>gi|363899334|ref|ZP_09325843.1| hypothetical protein HMPREF9625_00503 [Oribacterium sp. ACB1]
gi|395208255|ref|ZP_10397496.1| RNA polymerase sigma factor RpoD [Oribacterium sp. ACB8]
gi|361958374|gb|EHL11673.1| hypothetical protein HMPREF9625_00503 [Oribacterium sp. ACB1]
gi|394705836|gb|EJF13360.1| RNA polymerase sigma factor RpoD [Oribacterium sp. ACB8]
Length = 385
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 50/137 (36%), Positives = 70/137 (51%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE+ L ++ Q G E
Sbjct: 106 LLEGIGTEDPVRMYLKEIGTVPLLTAEEEYSL---------------AMKKQEGDE---- 146
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 147 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 185
Query: 367 MKSVEKFKPQAGCRFAN 383
+K VEKF P+ G + +
Sbjct: 186 IKGVEKFDPEKGFKLST 202
Score = 74.3 bits (181), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 293 GDFVADANVLSPEGNVESVMLREHIDSLLDDLKERERQVIVLRFGLEDGHPRTLEEVGRE 352
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 353 FNVTRERIRQIEAKALRKLRNPVRSK 378
>gi|296393381|ref|YP_003658265.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus
rotundus DSM 44985]
gi|296180528|gb|ADG97434.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus
rotundus DSM 44985]
Length = 441
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 11/130 (8%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIG 313
D +R +L LL A++E EL +I+ + +E+ ++ ++ G R PT
Sbjct: 139 DSVRAYLKQIGKVALLNAEQEVELAKRIEAGL-YAQERLRIAAEEGDRLPTT-------- 189
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RDL + GN ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 190 -SRRDLNWVVRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKF 248
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 249 DYSKGYKFST 258
Score = 65.5 bits (158), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L++ ++ +L L+ +E +VR+RFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 363 AVSFTLLQDQLQAVLETLSEREAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 422
Query: 452 ALYRLK 457
+ +L+
Sbjct: 423 TMSKLR 428
>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 = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/140 (31%), Positives = 73/140 (52%), Gaps = 2/140 (1%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
W + LT+ EE EL+ + + L + +S+L+ REP+ EWA R L+
Sbjct: 152 WRNLHHRYLTSQEEIELVELLTPVKHLHQVRSELRRVLRREPSDDEWATTANTDFRTLRR 211
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQYQ--GRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
L G +++ KLI N RLV+ +A++Y+ SL DL QEG GL+ +++ F P G
Sbjct: 212 RLQLGEAAQNKLIEHNCRLVLFLARRYERDAGSFSLEDLCQEGVKGLIDAMDHFNPGKGT 271
Query: 380 RFANTGVEIPDISVQKQLMR 399
RF+ + ++ + + R
Sbjct: 272 RFSTYAIFWIRTAIVRAITR 291
Score = 48.9 bits (115), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 43/74 (58%), Gaps = 2/74 (2%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKER 444
E DI + +R+ + L L KER +++ R+G+EDG KSL EVG +S+E
Sbjct: 371 ETGDIVSESSEVREEIVTALQRLKDKERMVLQHRYGLEDGALAVKSLREVGRRLNMSQEM 430
Query: 445 VRQLESRALYRLKQ 458
VR+ E+ AL RL+
Sbjct: 431 VRRYEASALERLRH 444
>gi|219125233|ref|XP_002182890.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
gi|217405684|gb|EEC45626.1| predicted protein [Phaeodactylum tricornutum CCAP 1055/1]
Length = 312
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/122 (35%), Positives = 71/122 (58%), Gaps = 5/122 (4%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
+T ++E +L IQ +L+ + +L++Q GR T EWA +GLS ++L+ ++ +
Sbjct: 1 VTPEQEIQLARIIQQGAQLQGSRVELENQLGRSCTKQEWADKVGLSNKELRRVVNDYRRA 60
Query: 330 REKLINANLRLVVHVAKQYQG-----RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
+ L+ ANL LV V Q G GI+ +L+QEGS+GL+++ E F P+ G RF+
Sbjct: 61 KHDLVTANLGLVHAVVNQQYGSLKTHTGITKEELIQEGSLGLLRAAELFDPERGLRFSTY 120
Query: 385 GV 386
V
Sbjct: 121 AV 122
Score = 45.4 bits (106), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 34/51 (66%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L+ +E ++RLR+G+ DG+ +SL+E + GLS R +Q+ L +L+Q+
Sbjct: 248 LDAREARLLRLRYGLADGQTRSLAECADAMGLSPTRTQQIAQTCLSKLRQA 298
>gi|319948428|ref|ZP_08022566.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4]
gi|319437910|gb|EFV92892.1| RNA polymerase sigma factor SigB [Dietzia cinnamea P4]
Length = 322
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 79/130 (60%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL +I+ + L ++ L+E K +G
Sbjct: 24 DLVRVYLNGIGKTALLNAEDEVELSKRIE---------AGLYAKH-----LLETKKRLGP 69
Query: 315 SCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + DLK+ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 70 AKKADLKTIVAEGEAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 129
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 130 DYAKGFKFST 139
Score = 65.5 bits (158), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 47/68 (69%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +M VR +L L +E+ ++ LRFG++DG+P++L ++G FGLS+ERVRQ+E
Sbjct: 244 TVVSNVMHSDVRAVLATLEEREQQVITLRFGLDDGQPRTLDQIGKRFGLSRERVRQIERE 303
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 304 VMAKLREG 311
>gi|317506478|ref|ZP_07964279.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974]
gi|316255239|gb|EFV14508.1| sigma-70 protein [Segniliparus rugosus ATCC BAA-974]
Length = 348
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 50/143 (34%), Positives = 78/143 (54%), Gaps = 17/143 (11%)
Query: 245 KKLSEGFDRNDP----LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
++L E D P +R++L G LLTA++E L I+ + E + + G
Sbjct: 36 ERLQEDLDTQSPAADLVRVYLNGIGRTALLTAEDEVTLAKSIEAGLYAEH---LINTSEG 92
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
P R+LK+ + G ++R L+ ANLRLVV +AK+Y GRGI L DL+Q
Sbjct: 93 LTPQ----------RRRELKAVVRDGRAARTHLLEANLRLVVSLAKRYTGRGIPLLDLIQ 142
Query: 361 EGSMGLMKSVEKFKPQAGCRFAN 383
EG++GL++++EKF G +F+
Sbjct: 143 EGNLGLIRAMEKFDYSKGFKFST 165
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 48/66 (72%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V + + VR++L L+ E+ ++RLR+G++DG+P++L ++G IF LS+ERVRQ+E
Sbjct: 270 AVIAGFLHRDVRSVLATLSDSEQQVIRLRYGLDDGQPRTLDQIGKIFSLSRERVRQIERE 329
Query: 452 ALYRLK 457
+ +L+
Sbjct: 330 VMVKLR 335
>gi|427401440|ref|ZP_18892512.1| RNA polymerase sigma factor RpoS [Massilia timonae CCUG 45783]
gi|425719549|gb|EKU82481.1| RNA polymerase sigma factor RpoS [Massilia timonae CCUG 45783]
Length = 346
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/130 (33%), Positives = 78/130 (60%), Gaps = 6/130 (4%)
Query: 325 SGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
SG+ +R+K+I NLRLVV +AK Y RG+ L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 101 SGDFGARQKMIEHNLRLVVSIAKHYINRGVVLLDLIEEGNIGLMRAIDKFEPERGFRFST 160
Query: 384 TGVEIPDISVQKQLMRQHVRNLLTLLNPKE-RCIVRLRFGIE----DGKPKSLSEVGNIF 438
S+++ +M Q L + +E ++R ++ +E DGK S ++ ++
Sbjct: 161 YATWWIRQSIERAIMNQARTVRLPVHMVRELNGVLRAKYHLEAQKHDGKEASSEDIASLV 220
Query: 439 GLSKERVRQL 448
G E V+ +
Sbjct: 221 GRPVEEVQDI 230
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 47/76 (61%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD ++Q + VR+ LT L K+R +V RFG+++ P +L + G+++ERVRQ+
Sbjct: 264 PDAHAEQQEVALLVRDWLTRLPDKQRLVVTRRFGLDNDDPATLETLAEEMGVTRERVRQI 323
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+++ +
Sbjct: 324 QQEALVKLKRAMAARG 339
>gi|94984583|ref|YP_603947.1| RNA polymerase subunit sigma 28 [Deinococcus geothermalis DSM
11300]
gi|94554864|gb|ABF44778.1| RNA polymerase, sigma 28 subunit [Deinococcus geothermalis DSM
11300]
Length = 532
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 77/130 (59%), Gaps = 12/130 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R +L LLT +EE L +I++ +E K+ + G E L + A+
Sbjct: 229 NDPVRQYLHEIGRVPLLTLEEEIALARRIEE----GEEARKMLEEAGDE--LDDRAR--- 279
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L ++ G ++R+ LI ANLRLVV +AK+Y GRG+ DL+QEG+ GL+++VEKF
Sbjct: 280 ---RRLMRQMEDGAAARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKF 336
Query: 374 KPQAGCRFAN 383
+ + +F+
Sbjct: 337 EYRRRYKFST 346
Score = 52.4 bits (124), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 82/179 (45%), Gaps = 31/179 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + +L + +LQ + REPT E A+A+G
Sbjct: 371 VHMVETINKLTRTARQLQQELSREPTYEEIAEAMGPGW---------------------- 408
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
AK + + +S + E +G K + F G + ++ P + K L+
Sbjct: 409 ----DAAKVEEVQKVSQEPVSLETPIGDEK--DSFY---GDFIPDENLDSPVDNAAKTLL 459
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+ + L+ L +E +++ R G+ DG+ +L EVG F +++ER+RQ+E++AL +LK
Sbjct: 460 SEELEKALSKLTEREALVLKFRKGLVDGREHTLEEVGQRFNVTRERIRQIENKALRKLK 518
>gi|374366350|ref|ZP_09624431.1| RNA polymerase sigma factor RpoS [Cupriavidus basilensis OR16]
gi|373102134|gb|EHP43174.1| RNA polymerase sigma factor RpoS [Cupriavidus basilensis OR16]
Length = 368
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
S+R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 127 SARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 186
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 187 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 246
Query: 443 ERVRQL 448
+ ++ +
Sbjct: 247 DEIQDV 252
Score = 49.7 bits (117), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 286 PDQEVAHRELENLMKQWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 345
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 346 QQEALVKLKRHFASQG 361
>gi|331696792|ref|YP_004333031.1| RpoD subfamily RNA polymerase sigma-70 subunit [Pseudonocardia
dioxanivorans CB1190]
gi|326951481|gb|AEA25178.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pseudonocardia
dioxanivorans CB1190]
Length = 348
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 49/134 (36%), Positives = 75/134 (55%), Gaps = 19/134 (14%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E +L +I+ + F R +++ A A G
Sbjct: 46 DLVRVYLNGIGKTALLTAAQEVDLAKRIEAGV------------FARH--VLDTAAAEGR 91
Query: 315 S-----CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
RDL++ G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL+++
Sbjct: 92 ELDPDYARDLRAVARDGARARNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRA 151
Query: 370 VEKFKPQAGCRFAN 383
VEKF G +F+
Sbjct: 152 VEKFDYAKGFKFST 165
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 47/66 (71%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ +R +L L+ +E+ ++R+R+G++DG+P +L ++G FGLS+ERVRQ+E
Sbjct: 270 TVISHLLHDDLRRVLATLDEREQNVIRMRYGLDDGQPCTLDQIGRRFGLSRERVRQIERE 329
Query: 452 ALYRLK 457
+ +L+
Sbjct: 330 VMAKLR 335
>gi|312196071|ref|YP_004016132.1| RpoD subfamily RNA polymerase sigma-70 subunit [Frankia sp. EuI1c]
gi|311227407|gb|ADP80262.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EuI1c]
Length = 393
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 56/163 (34%), Positives = 90/163 (55%), Gaps = 17/163 (10%)
Query: 224 KVSKPQVTNHETYN--SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQ 281
+V P+ + ET + +R+ ++ L+ +DP+R++L LLTA EE +L +
Sbjct: 62 EVLDPRADSAETSDLLARRRREEEALNAKAPTSDPVRMYLKEIGKVPLLTAAEEVDLAKR 121
Query: 282 IQ-DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+ L EK GR T + L DL++ G+ ++ KL+ ANLRL
Sbjct: 122 IEAGLFAAEKLGG------GRRLT-------VALRV-DLEAVARDGDVAKRKLVEANLRL 167
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
VV +AK+Y GRG+ DL+QEG++GL+++VEKF G +F+
Sbjct: 168 VVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 210
Score = 62.4 bits (150), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 320 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 379
Query: 457 K 457
+
Sbjct: 380 R 380
>gi|159903122|ref|YP_001550466.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9211]
gi|159888298|gb|ABX08512.1| Putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. MIT 9211]
Length = 312
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/117 (38%), Positives = 74/117 (63%), Gaps = 17/117 (14%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR--DL-KSELHS 325
LLT +EE + ++Q ++ L EKSKL ++ G +C DL + +
Sbjct: 16 LLTPEEELTMGRKVQAMVAL-LEKSKL-------------SEGKGEACEYTDLERRTIRQ 61
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
G ++ ++I +NLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P+ G RF+
Sbjct: 62 GERAKNQMITSNLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFS 118
Score = 42.4 bits (98), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 22/52 (42%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 409 LNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER IV LRFG++ ++L+EV S+E RQ+ RAL +L+++
Sbjct: 245 LTPKERTIVSLRFGLDGSNEWRTLAEVAKHMNCSREYCRQVVQRALRKLRKT 296
>gi|94311053|ref|YP_584263.1| RNA polymerase sigma factor RpoS [Cupriavidus metallidurans CH34]
gi|93354905|gb|ABF08994.1| RNA polymerase sigma 38 (sigma S) factor [Cupriavidus metallidurans
CH34]
Length = 386
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/126 (35%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
S+R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 145 SARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 204
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 205 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 264
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 265 DEVQDV 270
Score = 47.8 bits (112), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 304 PDQEVAHRELENLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 363
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 364 QQEALVKLKRHFASQG 379
>gi|291526136|emb|CBK91723.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale DSM
17629]
gi|291527130|emb|CBK92716.1| RNA polymerase, sigma 70 subunit, RpoD [Eubacterium rectale M104/1]
Length = 418
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/135 (35%), Positives = 79/135 (58%), Gaps = 2/135 (1%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG DP+R++L LL+ADEE EL ++D ++ + L+ + + E
Sbjct: 103 EGVSVEDPVRMYLKEIGKVPLLSADEEIELAQNMEDGAVATEKINVLKGRI--DGASEEE 160
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
I + L+ ++ G ++++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+K
Sbjct: 161 KAEIKEEIKTLQRDVDKGADAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 220
Query: 369 SVEKFKPQAGCRFAN 383
+VEKF + G +F+
Sbjct: 221 AVEKFDYKKGYKFST 235
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + V +P + L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG
Sbjct: 326 GDFIKDDNVPVPADAAAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKE 385
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 386 FNVTRERIRQIEAKALRKLR 405
>gi|124025343|ref|YP_001014459.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. NATL1A]
gi|123960411|gb|ABM75194.1| Putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. NATL1A]
Length = 307
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/116 (37%), Positives = 72/116 (62%), Gaps = 11/116 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT ++E L ++Q ++ L + + Q G P E++ A K +G
Sbjct: 15 ELLTPEQELTLGREVQAMVALNE---RCQQAGGNGPE-CEYSSA-------EKKRFKAGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P+ G RF+
Sbjct: 64 RAKNQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPKRGHRFST 119
Score = 40.8 bits (94), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 33/52 (63%), Gaps = 1/52 (1%)
Query: 409 LNPKERCIVRLRFGIEDGKP-KSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER I+ LRFG++ ++L+EV S+E RQ+ RAL +L+++
Sbjct: 245 LTPKERTILSLRFGLDGSNEWRTLAEVARQMNCSREYCRQVVQRALRKLRKT 296
>gi|113868347|ref|YP_726836.1| RNA polymerase sigma factor RpoS [Ralstonia eutropha H16]
gi|113527123|emb|CAJ93468.1| DNA-directed RNA polymerase sigma subunit (sigma38) [Ralstonia
eutropha H16]
Length = 392
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 151 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 210
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 211 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 270
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 271 DEVQDV 276
Score = 48.1 bits (113), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 310 PDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 369
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 370 QQEALVKLKRHFASQG 385
>gi|238924709|ref|YP_002938225.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656]
gi|238876384|gb|ACR76091.1| RNA polymerase sigma factor RpoD [Eubacterium rectale ATCC 33656]
Length = 434
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/134 (35%), Positives = 79/134 (58%), Gaps = 2/134 (1%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG DP+R++L LL+ADEE EL ++D ++ + L+ + + E
Sbjct: 119 EGVSVEDPVRMYLKEIGKVPLLSADEEIELAQNMEDGAVATEKINVLKGRI--DGASEEE 176
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
I + L+ ++ G ++++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+K
Sbjct: 177 KAEIKEEIKTLQRDVDKGADAKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIK 236
Query: 369 SVEKFKPQAGCRFA 382
+VEKF + G +F+
Sbjct: 237 AVEKFDYKKGYKFS 250
Score = 60.8 bits (146), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 52/80 (65%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G + V +P + L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG
Sbjct: 342 GDFIKDDNVPVPADAAAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKE 401
Query: 438 FGLSKERVRQLESRALYRLK 457
F +++ER+RQ+E++AL +L+
Sbjct: 402 FNVTRERIRQIEAKALRKLR 421
>gi|443325525|ref|ZP_21054216.1| RNA polymerase sigma factor, sigma-70 family [Xenococcus sp. PCC
7305]
gi|442794846|gb|ELS04242.1| RNA polymerase sigma factor, sigma-70 family [Xenococcus sp. PCC
7305]
Length = 294
Score = 77.8 bits (190), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 43/114 (37%), Positives = 65/114 (57%), Gaps = 21/114 (18%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE L QIQ ++ L ++ ++E K + +G
Sbjct: 20 LLTGEEEVILANQIQAMLPL----------LDKKDLVLEEKKIV-----------QNGQR 58
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K++ ANLRLVV +AK+YQ RG++L DL+QEGS+GLM+ EKF P G +F+
Sbjct: 59 AKRKMVQANLRLVVSIAKKYQNRGLTLLDLIQEGSIGLMRGAEKFDPSKGYKFS 112
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 61/93 (65%), Gaps = 1/93 (1%)
Query: 366 LMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIED 425
L +++++ + + G A+ D +++L Q VRNLL L+PK++ ++ LRFG+ +
Sbjct: 193 LNRTIDENQTELGQILADDSASPTDFIAKEELNSQ-VRNLLHTLSPKQQKVITLRFGLNN 251
Query: 426 GKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
GK + ++G+ G+S+ERVRQ++++AL L+Q
Sbjct: 252 GKTMTYEQIGSQCGISRERVRQIKNKALKLLQQ 284
>gi|323449639|gb|EGB05525.1| hypothetical protein AURANDRAFT_60247 [Aureococcus anophagefferens]
Length = 399
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 64/228 (28%), Positives = 108/228 (47%), Gaps = 31/228 (13%)
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRD---LKSE 322
+R LLT DEE +++ L+ +E + + R PT E A +G C D L +
Sbjct: 73 SRPLLTKDEEVRFGTRVRTLVAIESARDAWADAYDRPPTDAELAPTVG--CADPAALAAT 130
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQ--------------GRGISLHDLLQEGSMGLMK 368
L +RE ++ +N+RLVV +A++ Q G +L DL+ EG++GL K
Sbjct: 131 LAECREAREVMMLSNMRLVVAMARRMQRSLPQASRLAVDRDGGSYALDDLVAEGTLGLAK 190
Query: 369 SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHV----RNLLTLLNPKERCIVRLRFGIE 424
+V++F+P G RF+ ++Q+ + R+ V ++ L E LR E
Sbjct: 191 AVDRFEPDRGFRFSTYATWWVRQAIQRAIRRRAVVAVPVHVQQLAKKCENATQELRD--E 248
Query: 425 DGKPKSLSEVGNIFGLSKERVRQLESRALYR------LKQSLGGKASY 466
G+P + +E+ G S++R++ AL L + GGK S+
Sbjct: 249 YGRPPTSAELAARVGASEKRLKLAGRAALATFSLDVPLSAARGGKGSH 296
Score = 55.1 bits (131), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 43/173 (24%), Positives = 81/173 (46%), Gaps = 21/173 (12%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
+ E +L+ ++GR PT E A +G S + LK + R L A L V ++
Sbjct: 237 KCENATQELRDEYGRPPTSAELAARVGASEKRLKL------AGRAAL--ATFSLDVPLSA 288
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLL 406
G+G + D + ++ + ++ P+ F I D ++ L
Sbjct: 289 ARGGKGSHVADFAEAATLNEIVESDEPAPEEAATFHELRDAI-DYAMHANL--------- 338
Query: 407 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
P ER ++RLR G++DG+ ++ +VG I G +++++R +E AL +L+ +
Sbjct: 339 ---QPSERDVLRLRLGLDDGETRTRRQVGEICGQTEKKIRAIERAALTKLRHT 388
>gi|291458966|ref|ZP_06598356.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078
str. F0262]
gi|291418220|gb|EFE91939.1| RNA polymerase sigma factor RpoD [Oribacterium sp. oral taxon 078
str. F0262]
Length = 388
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 47/137 (34%), Positives = 70/137 (51%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+A+EE+ L ++ Q G E
Sbjct: 109 LLEGIGTEDPVRMYLKEIGTVSLLSAEEEYAL---------------AIRKQQGDE---- 149
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+++++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 150 ---------------------AAKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 188
Query: 367 MKSVEKFKPQAGCRFAN 383
+K VEKF P+ G + +
Sbjct: 189 IKGVEKFDPEKGFKLST 205
Score = 75.5 bits (184), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ V P+ +V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 296 GDFVADANVLTPESNVEAVMLREHIDSLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 355
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 356 FNVTRERIRQIEAKALRKLRNPVRSK 381
>gi|47777365|gb|AAT37999.1| putative RNA polymerase sigma factor [Oryza sativa Japonica Group]
Length = 882
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 59/110 (53%), Gaps = 1/110 (0%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
E+ L+ I++ LEK + L G E + WAKA G+ L+S L G RE+L
Sbjct: 590 EQSALLVTIKECANLEKIRENLLKD-GSEVSHASWAKAAGIDEALLRSRLQEGYCCRERL 648
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ LV ++AK Y G G + DLLQ G MG++ EKF Q GC+F+
Sbjct: 649 LVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFST 698
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/183 (27%), Positives = 95/183 (51%), Gaps = 34/183 (18%)
Query: 276 FELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
+L A+++ +IR +E + ++ GR P E A IG+S
Sbjct: 719 IQLPARMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSV------------------ 760
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
AN+RL A++ R +SL+ E +G + P +T +E PD ++
Sbjct: 761 -ANVRL----ARKCSRRVVSLY---TEIGVGQNAKFVEVTP-------DTSLEAPDEAMF 805
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
+ +R+ + ++L L P+E +++LR G+EDGK +SL ++G+I+ +SKE +R++E A+
Sbjct: 806 RMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIRKIEKSAMS 865
Query: 455 RLK 457
+L+
Sbjct: 866 KLR 868
>gi|339326404|ref|YP_004686097.1| DNA-directed RNA polymerase sigma-38 subunit RpoS [Cupriavidus
necator N-1]
gi|338166561|gb|AEI77616.1| DNA-directed RNA polymerase sigma-38 subunit RpoS [Cupriavidus
necator N-1]
Length = 392
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 151 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 210
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 211 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 270
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 271 DEVQDV 276
Score = 47.8 bits (112), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 310 PDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 369
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 370 QQEALVKLKRHFASQG 385
>gi|288923254|ref|ZP_06417393.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EUN1f]
gi|288345398|gb|EFC79788.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Frankia sp.
EUN1f]
Length = 400
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L +LLTA EE +L +I+ + + KL + P L
Sbjct: 101 SDPVRMYLKTIGRVRLLTAAEEVDLAKRIEAGLFASE---KLAATRKISPQL-------- 149
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+DL++ G ++ KL+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL+++VEKF
Sbjct: 150 --RQDLQAVEQDGQIAKRKLVEANLRLVVSIAKRYVGRGMLLLDLIQEGNLGLIRAVEKF 207
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 208 DYTKGYKFST 217
Score = 65.5 bits (158), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 47/60 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++H+ ++L L +E+ +++LRFG+ DG+P++L ++G FG+ +ER+RQ+ESR L +L
Sbjct: 327 LLQKHIESVLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREFGIPQERIRQIESRTLAKL 386
>gi|123968168|ref|YP_001009026.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. AS9601]
gi|123198278|gb|ABM69919.1| Putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. AS9601]
Length = 307
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 60/200 (30%), Positives = 106/200 (53%), Gaps = 18/200 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT + E + ++Q+++ L ++ Q G+ P E+++A + ++ G
Sbjct: 15 QLLTPERELTMGRKVQEMVVL---VNRCQEAGGKGPA-CEYSEA-------ERKKIKIGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 64 KAKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYW 123
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE-----DGKPKSLSEVGNIFGLSK 442
+ + L Q R + +N E+ + +LR G P + E+ ++K
Sbjct: 124 WIRQGLNRALSTQS-RTIRIPVNINEK-LTKLRSAKSKLMQLKGIPPTSDELAEEMKITK 181
Query: 443 ERVRQLESRALYRLKQSLGG 462
E V +L S L + SL G
Sbjct: 182 EEVDELLSCELRSITVSLQG 201
>gi|269925235|ref|YP_003321858.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermobaculum
terrenum ATCC BAA-798]
gi|269788895|gb|ACZ41036.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobaculum
terrenum ATCC BAA-798]
Length = 344
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 67/210 (31%), Positives = 103/210 (49%), Gaps = 30/210 (14%)
Query: 247 LSEGFDR---NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREP 303
L E DR D L ++L +LLTA+EE L I+ R ++ + +LQS P
Sbjct: 36 LEEEMDRELIGDSLGIYLREIGRAQLLTAEEEVALAQAIE---RGQEAEQRLQSD-DISP 91
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
++ DLK + G ++R KLI NLRLVV +A++Y G G+ L DL++EG+
Sbjct: 92 EELD----------DLKKAVEEGKAARHKLIEHNLRLVVSIARRYVGHGMPLADLIEEGN 141
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERC 415
+GLM++ EKF + G RF+ +V + L HV LT + + +
Sbjct: 142 LGLMRAAEKFDWRRGFRFSTYATWWIRQAVTRGLAEGGRTIRLPVHVGEALTKIGRETQ- 200
Query: 416 IVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
R +E G+ + E+ GLS ER+
Sbjct: 201 ----RLSLELGREPTNQELAEATGLSPERI 226
Score = 58.9 bits (141), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 49/175 (28%), Positives = 79/175 (45%), Gaps = 33/175 (18%)
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
L ++ +E +L + GREPT E A+A GLS + N+SR L
Sbjct: 192 LTKIGRETQRLSLELGREPTNQELAEATGLSPERID---EYKNASRLPL----------- 237
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRN 404
SL E +G E + G +T P+ ++ + ++
Sbjct: 238 ---------SL-----EAPLG-----EDGETNLGEVLEDTEAANPEHIADHTMLGEDIKR 278
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L LN ++R I+ +R+G+ G+P +L G G+++ER RQ+E AL RL+QS
Sbjct: 279 ALERLNERQRAIIIMRYGLYGGQPMTLEAAGRKLGVTRERARQIEQEALNRLRQS 333
>gi|404446700|ref|ZP_11011803.1| RNA polymerase sigma factor SigB [Mycobacterium vaccae ATCC 25954]
gi|403650063|gb|EJZ05350.1| RNA polymerase sigma factor SigB [Mycobacterium vaccae ATCC 25954]
Length = 319
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L++ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLDTRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYAKGFKFST 136
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|227872476|ref|ZP_03990816.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus
F0268]
gi|227841677|gb|EEJ51967.1| DNA-directed RNA polymerase sigma subunit SigA [Oribacterium sinus
F0268]
Length = 385
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/137 (35%), Positives = 69/137 (50%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTA+EE+ L ++ Q G E
Sbjct: 106 LLEGIGTEDPVRMYLKEIGTVPLLTAEEEYAL---------------AMKKQEGDE---- 146
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 147 ---------------------YAKQRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 185
Query: 367 MKSVEKFKPQAGCRFAN 383
+K VEKF P+ G + +
Sbjct: 186 IKGVEKFDPEKGFKLST 202
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+T V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 293 GDFVADTNVLSPEGNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 352
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 353 FNVTRERIRQIEAKALRKLRNPVRSK 378
>gi|134094484|ref|YP_001099559.1| RNA polymerase sigma factor RpoS [Herminiimonas arsenicoxydans]
gi|133738387|emb|CAL61432.1| RNA polymerase sigma factor rpoS (Sigma-38) [Herminiimonas
arsenicoxydans]
Length = 344
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 45/129 (34%), Positives = 76/129 (58%), Gaps = 6/129 (4%)
Query: 326 GN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
GN ++R+K+I NLRLVV +AK Y RG+ L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 100 GNFAARQKMIEHNLRLVVSIAKHYINRGVVLLDLIEEGNLGLMRAIDKFEPERGFRFSTY 159
Query: 385 GVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 439
S+++ +M Q VR +++ LN R L DGK + ++ ++
Sbjct: 160 ATWWIRQSIERAIMNQARTVRLPVHVVRELNQTLRAKFHLEAQHHDGKDATAEDIAHLVE 219
Query: 440 LSKERVRQL 448
S E V+ +
Sbjct: 220 RSVEDVQDI 228
Score = 57.0 bits (136), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 46/73 (63%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD+ + Q M VR+ L L+ K+R ++ RFG+++ P +L E+ +++ERVRQ+
Sbjct: 262 PDVLAEHQEMIVLVRDWLDKLSDKQRLVITRRFGLDNDDPATLEELATEMHVTRERVRQI 321
Query: 449 ESRALYRLKQSLG 461
+ AL +LK+SL
Sbjct: 322 QQEALVKLKRSLA 334
>gi|357588815|ref|ZP_09127481.1| RNA polymerase sigma factor SigB [Corynebacterium nuruki S6-4]
Length = 421
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 71/129 (55%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL ++++ E L K
Sbjct: 123 DLVRVYLNGIGRTPLLTAADEVEL-------------SQRIEAGLYAEHLLDSGEKLTRA 169
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 170 RKRDLKVLVREGRAARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 229
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 230 YAKGYKFST 238
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 47/67 (70%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L VR +L L+ +E+ ++++R+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 343 AVVASLRHSDVRAVLDTLDEREQDVIKMRYGLDDGMPRTLDQIGRSFGLSRERVRQIERE 402
Query: 452 ALYRLKQ 458
+ +L++
Sbjct: 403 VMAKLRE 409
>gi|451944386|ref|YP_007465022.1| RNA polymerase sigma factor SigB [Corynebacterium halotolerans YIM
70093 = DSM 44683]
gi|451903773|gb|AGF72660.1| RNA polymerase sigma factor SigB [Corynebacterium halotolerans YIM
70093 = DSM 44683]
Length = 329
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 52/129 (40%), Positives = 77/129 (59%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I+ + L + S+ EP + AK
Sbjct: 30 DLVRVYLNGIGKTALLTAEDEVELAQRIE--VGLYADYLLKNSE---EP--LTRAKK--- 79
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK GN +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 80 --RDLKVLAKEGNKARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 138 YAKGFKFST 146
Score = 62.0 bits (149), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 47/68 (69%)
Query: 390 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 449
+ +V L +R++L L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 249 ETAVVASLRHSDIRSVLGTLEQREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIE 308
Query: 450 SRALYRLK 457
+ +L+
Sbjct: 309 REVMSKLR 316
>gi|120403441|ref|YP_953270.1| RNA polymerase sigma factor SigB [Mycobacterium vanbaalenii PYR-1]
gi|119956259|gb|ABM13264.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium
vanbaalenii PYR-1]
Length = 329
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L++ K +G
Sbjct: 31 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLDTRKRLGE 76
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 77 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 136
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 137 DYAKGFKFST 146
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 251 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 310
Query: 452 ALYRLK 457
+ +L+
Sbjct: 311 VMAKLR 316
>gi|194290015|ref|YP_002005922.1| RNA polymerase sigma factor rpos [Cupriavidus taiwanensis LMG
19424]
gi|193223850|emb|CAQ69859.1| RNA polymerase sigma factor rpoS [Cupriavidus taiwanensis LMG
19424]
Length = 395
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 44/126 (34%), Positives = 73/126 (57%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P G RF+
Sbjct: 154 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPSRGFRFSTYATW 213
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L G DG+ SL ++ ++ G +
Sbjct: 214 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKGGTDGRDASLEDIAHLLGKTP 273
Query: 443 ERVRQL 448
+ V+ +
Sbjct: 274 DEVQDV 279
Score = 48.1 bits (113), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 42/76 (55%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + ++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 313 PDQEVAHRELEGLMKLWLARLSEKHRYVVERRFGLNHIEPATLEELAEEMGLTRERVRQI 372
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 373 QQEALVKLKRHFASQG 388
>gi|72161271|ref|YP_288928.1| sigma-70 factor [Thermobifida fusca YX]
gi|71915003|gb|AAZ54905.1| sigma-70 factor [Thermobifida fusca YX]
Length = 388
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 57/154 (37%), Positives = 80/154 (51%), Gaps = 32/154 (20%)
Query: 249 EGFDRNDPLRLFLWGPETRK-----------------LLTADEEFELIAQIQDLIRLEKE 291
E DR+D F PETR LLTA+EE EL I+ I L E
Sbjct: 66 EYVDRDD----FAEHPETRTSSGDIVHAYLREIGRVPLLTAEEEVELAKAIE--IGLYAE 119
Query: 292 KSKLQSQFGREPTLI--EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQ 349
+ ++ G P EW + DL + G ++ +LI +NLRLVV VAK+Y
Sbjct: 120 QKLRAARTGPVPAQYSPEWFE-------DLNELVREGKLAKRRLIESNLRLVVSVAKRYL 172
Query: 350 GRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
GRG++L DL+QEG++GL+++VEKF G +F+
Sbjct: 173 GRGLALLDLIQEGNLGLIRAVEKFDYTRGYKFST 206
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 89/183 (48%), Gaps = 40/183 (21%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + RL + + +L + GREPTL E SRE ++ +
Sbjct: 231 VHMVESINRLARTRRRLHQELGREPTLHEL--------------------SRELNVDHDR 270
Query: 339 RLVVHVAKQYQGRGISLHDLLQE--GSMG-LMKSVEKFKPQAGCRFANTGVEIPDISVQK 395
+ +H Q ISLH + E + G ++ + P F + +Q
Sbjct: 271 VVEIHRVSQ---EPISLHTPIGEEDSAFGDFIEDTDAVPPVEAAAF---------VMLQD 318
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
QL +L L+ +E+ ++ LRFG+EDGKP +L EVG FG+++ER+RQ+ES+ L +
Sbjct: 319 QLA-----QVLGGLSEREQRVITLRFGLEDGKPHTLEEVGRKFGVTRERIRQIESKTLAK 373
Query: 456 LKQ 458
L+Q
Sbjct: 374 LRQ 376
>gi|421189689|ref|ZP_15647003.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB422]
gi|421190853|ref|ZP_15648137.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB548]
gi|399972779|gb|EJO06978.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB422]
gi|399973549|gb|EJO07714.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB548]
Length = 458
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/206 (29%), Positives = 96/206 (46%), Gaps = 40/206 (19%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL AD+E + R+EK S
Sbjct: 178 GVKINDPVRMYLKEIGRVSLLNADQEVAIAK------RIEKGGS---------------- 215
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
G +R++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 216 ---------------DGERARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKA 260
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-G 426
VEKF G +F+ ++ + + Q +R + ++ + I R I+D G
Sbjct: 261 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 320
Query: 427 KPKSLSEVGNIFGLSKERVRQLESRA 452
+ E+G GL+ ++VR+++ A
Sbjct: 321 RDPMPEEIGAEMGLTADKVREIQKIA 346
Score = 71.6 bits (174), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 51/71 (71%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E P S Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+R
Sbjct: 374 ESPIESTSDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIR 433
Query: 447 QLESRALYRLK 457
Q+E++AL +L+
Sbjct: 434 QIEAKALRKLR 444
>gi|296139587|ref|YP_003646830.1| RpoD subfamily RNA polymerase sigma-70 subunit [Tsukamurella
paurometabola DSM 20162]
gi|296027721|gb|ADG78491.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Tsukamurella
paurometabola DSM 20162]
Length = 483
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 76/129 (58%), Gaps = 9/129 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A+EE EL +I+ + E+ ++ + G +P AIG+
Sbjct: 181 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFAEQMINRWVER-GEKP-------AIGI 232
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD+ GN ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 233 R-RDMNWIARDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 291
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 292 YTKGYKFST 300
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + ++ EK++
Sbjct: 327 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDITP--------------EKVLEI- 368
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 369 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 410
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 411 LQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 470
>gi|227504896|ref|ZP_03934945.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC
6940]
gi|227198489|gb|EEI78537.1| RNA polymerase sigma factor SigB [Corynebacterium striatum ATCC
6940]
Length = 337
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 73/129 (56%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL+A++E EL +I+ L +++ L K
Sbjct: 39 DLVRVYLNGIGKTALLSAEDEVELAQRIE---------VGLYAEY----KLANAEKITRA 85
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 86 EKRDLKILVREGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 145
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 146 YAKGFKFST 154
Score = 61.2 bits (147), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 42/56 (75%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R ++ L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E + +L+
Sbjct: 269 IRGVIETLEEREQDVIRLRYGLDDGVPRTLDQIGRKFGLSRERVRQIEREVMAKLR 324
>gi|116492861|ref|YP_804596.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Pediococcus pentosaceus ATCC 25745]
gi|421894229|ref|ZP_16324719.1| RNA polymerase sigma factor RpoD [Pediococcus pentosaceus IE-3]
gi|116103011|gb|ABJ68154.1| RNA polymerase, sigma 70 subunit, RpoD [Pediococcus pentosaceus
ATCC 25745]
gi|385272773|emb|CCG90091.1| RNA polymerase sigma factor RpoD [Pediococcus pentosaceus IE-3]
Length = 379
Score = 77.4 bits (189), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 55/160 (34%), Positives = 76/160 (47%), Gaps = 46/160 (28%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
K K Q + E + KA K+ NDP+R++L LLTAD+E EL
Sbjct: 83 KALKAQEISKEELDDTKAPAGVKI------NDPVRMYLKEIGRVSLLTADQEVEL----- 131
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+R+EK + +R++L ANLRLVV
Sbjct: 132 -ALRIEKGDPR----------------------------------ARQELAEANLRLVVS 156
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+AK+Y GRG+ DL+QEG+MGLMK+VEKF Q G +F+
Sbjct: 157 IAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYQKGFKFST 196
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 49/62 (79%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + +L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 305 ELLKEQLEGVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 364
Query: 456 LK 457
L+
Sbjct: 365 LR 366
>gi|358068536|ref|ZP_09154998.1| hypothetical protein HMPREF9333_01879 [Johnsonella ignava ATCC
51276]
gi|356693353|gb|EHI55032.1| hypothetical protein HMPREF9333_01879 [Johnsonella ignava ATCC
51276]
Length = 427
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 53/185 (28%), Positives = 99/185 (53%), Gaps = 33/185 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + ++ K + KL Q G EP++ E AKA+ ++ EK++
Sbjct: 270 VHMVETINKMSKMQRKLTLQLGYEPSVSELAKALDMTD--------------EKVME--- 312
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
++ +A++ SL E +G E+ G A++ V P+ +V+ ++
Sbjct: 313 --IMQIARE----PASL-----ETPIG-----EEDDSNLGDFVADSNVVSPEGNVESVML 356
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 357 REHIETLLADLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKALRKLRN 416
Query: 459 SLGGK 463
+ K
Sbjct: 417 PIRSK 421
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 63/208 (30%), Positives = 94/208 (45%), Gaps = 53/208 (25%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG DP+R++L T LL+ DEE EL + Q G E +
Sbjct: 151 EGVGTEDPVRMYLKEIGTVSLLSTDEEIELAKR---------------KQAGDE-----Y 190
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
AK +KLI ANLRLVV +AK+Y GRG+S DL+QEG++GL+K
Sbjct: 191 AK--------------------QKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGLIK 230
Query: 369 SVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLR 420
VEKF G + + SV + L Q H+ + ++ +R + L+
Sbjct: 231 GVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLT-LQ 289
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERVRQL 448
G E S+SE+ ++ E+V ++
Sbjct: 290 LGYE----PSVSELAKALDMTDEKVMEI 313
>gi|67920853|ref|ZP_00514372.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
gi|67856970|gb|EAM52210.1| Sigma-70 region 3:Sigma-70 region 2:Sigma-70 region 4:Sigma-70
region 1.2 [Crocosphaera watsonii WH 8501]
Length = 297
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 71/130 (54%), Gaps = 23/130 (17%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL++ EE +L +IQ ++ LEKE Q RE I
Sbjct: 8 DTVRHYLQSIGKTPLLSSAEEIKLAEEIQAMLPLLEKE------QLSREEEKI------- 54
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ G +RE++I ANLRLVV +AK+Y G+SL DL+QEGS+GL++ VEKF
Sbjct: 55 ---------VAKGQKARERMIEANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKF 105
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 106 DPARGYKFST 115
Score = 53.9 bits (128), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 38/61 (62%)
Query: 401 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 460
+ NLL L P+++ ++ LRFG+ DGK S +G G+S ER RQ+ SRAL L++
Sbjct: 230 QINNLLESLTPRQKEVIILRFGLRDGKQMSYKAIGEKCGVSHERARQIYSRALKILRKQT 289
Query: 461 G 461
G
Sbjct: 290 G 290
>gi|159037062|ref|YP_001536315.1| RNA polymerase sigma factor SigB [Salinispora arenicola CNS-205]
gi|157915897|gb|ABV97324.1| RNA polymerase, sigma 70 subunit, RpoD family [Salinispora
arenicola CNS-205]
Length = 328
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/130 (37%), Positives = 77/130 (59%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L+G KLLTA +E EL +I+ + E +KL + TL +A
Sbjct: 28 TDLVRAYLYGIGKTKLLTAAQEVELSRRIEAGLFAE---AKLAACTPVSATL----RA-- 78
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
DL+ G ++++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 79 ----DLELVAVEGRAAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKF 134
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 135 DYTKGYKFST 144
Score = 73.6 bits (179), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 31/69 (44%), Positives = 51/69 (73%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD + ++ +RQ VR +L L+ +E+ ++RLRFG++DG+ ++L EVG FGLS+ER+RQ+
Sbjct: 247 PDNTAERGELRQEVRGVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQI 306
Query: 449 ESRALYRLK 457
E L +L+
Sbjct: 307 EKGTLRKLR 315
>gi|409358553|ref|ZP_11236916.1| RNA polymerase sigma factor SigB [Dietzia alimentaria 72]
Length = 322
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG- 313
D +R++L G LL A++E EL +I+ + L +Q ++ K IG
Sbjct: 24 DLVRVYLNGIGKTALLKAEDEVELSKRIE---------AGLYAQH-----ILATKKRIGP 69
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ DLK+ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 70 VRKSDLKAVVAEGEAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 129
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 130 DYAKGFKFST 139
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 89/182 (48%), Gaps = 36/182 (19%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
L+ Q+ L R+++E L Q GRE TL E A+ G+ ++ L + SR+ + +
Sbjct: 166 LVEQVNKLARIKRE---LHQQLGRESTLDELAEESGIPAHKIEELL---DHSRDPV---S 216
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
L + V ++ L D +++ S E +V +
Sbjct: 217 LDMPVGADEEA-----PLGDFIEDAEA---TSAEN-------------------TVLSNV 249
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M VR +L L +E+ ++ LRFG+ DG+P++L ++G FGLS+ERVRQ+E + +L+
Sbjct: 250 MHSDVRAVLATLEEREQQVIMLRFGLNDGQPRTLDQIGKRFGLSRERVRQIEREVMAKLR 309
Query: 458 QS 459
+
Sbjct: 310 EG 311
>gi|358064323|ref|ZP_09150899.1| hypothetical protein HMPREF9473_02962 [Clostridium hathewayi
WAL-18680]
gi|356697448|gb|EHI59031.1| hypothetical protein HMPREF9473_02962 [Clostridium hathewayi
WAL-18680]
Length = 376
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 62/210 (29%), Positives = 97/210 (46%), Gaps = 53/210 (25%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+ADEE EL +
Sbjct: 98 LLEGIGTEDPVRMYLKEIGTVPLLSADEELELAKR------------------------- 132
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
KA G +S++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 133 ---KADG------------DDSAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 177
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVR 418
+K VEKF G + + SV + L Q H+ + ++ +R
Sbjct: 178 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQR---- 233
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
+ +E G S++E+ +S+++V ++
Sbjct: 234 -KLTLELGYEPSVTELAEALEMSEDKVMEI 262
Score = 75.1 bits (183), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 59/86 (68%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A++ V P+ +V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG
Sbjct: 285 GDFVADSNVVTPEGNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKE 344
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 345 FNVTRERIRQIEAKALRKLRNPVRSK 370
>gi|354617029|ref|ZP_09034545.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
gi|353218616|gb|EHB83339.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Saccharomonospora
paurometabolica YIM 90007]
Length = 464
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRL-EKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ + IR+ E+E KL +Q
Sbjct: 162 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERIRVTEEEGEKLSTQM-------- 213
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 214 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 265
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 266 RAVEKFDYTKGFKFST 281
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 308 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 349
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 350 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 391
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 392 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 451
>gi|148271746|ref|YP_001221307.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis
subsp. michiganensis NCPPB 382]
gi|147829676|emb|CAN00592.1| putative RNA polymerase sigma 70 factor [Clavibacter michiganensis
subsp. michiganensis NCPPB 382]
Length = 347
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 50/67 (74%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+ ++ G +++ L+NANLRLVV +AK+Y GRG+ DL+QEG+MGL+++VEKF Q
Sbjct: 98 REYQTLAQDGMRAKQHLVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQ 157
Query: 377 AGCRFAN 383
AG +F+
Sbjct: 158 AGFKFST 164
Score = 55.1 bits (131), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 43/65 (66%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V +QLM HV L+ L ++ +VR+RFG+ +P+SL+ V G+++ERVRQ+E +
Sbjct: 273 VTQQLMAAHVMRLIDGLAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKV 332
Query: 453 LYRLK 457
L +L+
Sbjct: 333 LAKLR 337
>gi|218438398|ref|YP_002376727.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cyanothece sp. PCC
7424]
gi|218171126|gb|ACK69859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7424]
Length = 295
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/115 (38%), Positives = 69/115 (60%), Gaps = 23/115 (20%)
Query: 269 LLTADEEFELIAQIQDLIRL-EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
LL++ +E EL Q+Q+++ L +KE L+ ++K + G
Sbjct: 21 LLSSQQEVELATQVQNMMALLDKE---------------------NLTPEEIKI-IQQGK 58
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++ K+I+ANLRLVV +AK+YQ RG+S DL+QEGS+GL++ VEKF P G +F+
Sbjct: 59 RAKRKMISANLRLVVSIAKKYQRRGLSFLDLIQEGSIGLIRGVEKFDPSKGYKFS 113
Score = 55.8 bits (133), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 41/56 (73%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
V LL L P+++ I+ LR+G+++GK SL EVG+ LS+ERVRQL++RA+ LK
Sbjct: 229 VEQLLETLPPRQQEIIALRYGLKNGKQMSLEEVGHHCNLSRERVRQLQNRAMRTLK 284
>gi|324999213|ref|ZP_08120325.1| RNA polymerase sigma factor SigB [Pseudonocardia sp. P1]
Length = 380
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/141 (34%), Positives = 78/141 (55%), Gaps = 11/141 (7%)
Query: 247 LSEGFDRNDP----LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGRE 302
L+E D P +R++L G LLTA EE +L +I+ I + ++ E
Sbjct: 64 LAEDLDAQSPAADLVRVYLNGIGRTALLTAAEEVDLAKRIEAGIFAQHRLDTATAEGTLE 123
Query: 303 PTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
++ RDL++ + G ++ L+ ANLRLVV +AK+Y GRG+ L DL+QEG
Sbjct: 124 SLDPQY-------RRDLRAVVRDGALAKNHLLEANLRLVVSLAKRYTGRGMPLLDLIQEG 176
Query: 363 SMGLMKSVEKFKPQAGCRFAN 383
++GL+++VEKF G +F+
Sbjct: 177 NLGLIRAVEKFDYTKGFKFST 197
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 46/66 (69%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ +R +L L +E+ ++R+RFG++DG+P++L ++G F LS+ERVRQ+E
Sbjct: 302 TVISSLLSDDLRRVLATLEDREQKVIRMRFGLDDGQPRTLDQIGRAFTLSRERVRQIERE 361
Query: 452 ALYRLK 457
+ +L+
Sbjct: 362 VMAKLR 367
>gi|404420807|ref|ZP_11002540.1| RNA polymerase sigma factor SigB [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
gi|403659675|gb|EJZ14305.1| RNA polymerase sigma factor SigB [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
Length = 319
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 76/129 (58%), Gaps = 15/129 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLNTKKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLATVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFA 382
G +F+
Sbjct: 127 DYTKGFKFS 135
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMAKLRNG 308
>gi|453073916|ref|ZP_21976714.1| RNA polymerase sigma factor SigB [Rhodococcus triatomae BKS 15-14]
gi|452765402|gb|EME23659.1| RNA polymerase sigma factor SigB [Rhodococcus triatomae BKS 15-14]
Length = 323
Score = 77.4 bits (189), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L + ++E K +
Sbjct: 25 DLVRVYLNGIGRTALLTAADEVELAKRIE---------AGLYAAH-----VLETGKRLSA 70
Query: 315 SC-RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 SKKRDLAAIVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 131 DYAKGFKFST 140
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++R R+G++DG+P++L ++G IFGLS+ERVRQ+E
Sbjct: 245 AVIAGLLHSDVRSVLATLDEREQQVIRFRYGLDDGQPRTLDQIGKIFGLSRERVRQIERE 304
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 305 VMGKLRQG 312
>gi|359771709|ref|ZP_09275155.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
gi|359311145|dbj|GAB17933.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
Length = 329
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/159 (31%), Positives = 81/159 (50%), Gaps = 13/159 (8%)
Query: 225 VSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQD 284
+S+ V+ T R ++ L D +R++L G LL A++E EL QI+
Sbjct: 1 MSRTSVSPTPTATKRPPMTEQDLDAQSPSADLVRVYLNGIGRTALLNAEQEVELAKQIE- 59
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
+ + L + + RDL + G ++R L+ ANLRLVV +
Sbjct: 60 ------------TGLYAKHVLATRKRLSAVKKRDLAQIIREGEAARAHLLEANLRLVVSL 107
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
AK+Y GRG+ L DL+QEG++GL++++EKF G +F+
Sbjct: 108 AKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFST 146
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 49/68 (72%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR +L L+ +E+ ++R+RFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 251 AVIAGLLHSDVRTVLGTLDEREQQVIRMRFGLDDGQPRTLDQIGRLFGLSRERVRQIERE 310
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 311 VMVKLRHG 318
>gi|416379954|ref|ZP_11684013.1| RNA polymerase sigma factor [Crocosphaera watsonii WH 0003]
gi|357265758|gb|EHJ14479.1| RNA polymerase sigma factor [Crocosphaera watsonii WH 0003]
Length = 297
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 71/130 (54%), Gaps = 23/130 (17%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LL++ EE +L +IQ ++ LEKE Q RE I
Sbjct: 8 DTVRHYLQSIGKTPLLSSAEEIKLAEEIQAMLPLLEKE------QLSREEEKI------- 54
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ G +RE++I ANLRLVV +AK+Y G+SL DL+QEGS+GL++ VEKF
Sbjct: 55 ---------VAKGQKARERMIEANLRLVVSIAKKYLNSGLSLLDLIQEGSLGLIRGVEKF 105
Query: 374 KPQAGCRFAN 383
P G +F+
Sbjct: 106 DPARGYKFST 115
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 38/61 (62%)
Query: 401 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 460
+ NLL L P+++ ++ LRFG+ DGK S +G G+S ER RQ+ SRAL L++
Sbjct: 230 QINNLLESLTPRQKEVIILRFGLRDGKQMSYKAIGEKCGISHERARQIYSRALKILRKQT 289
Query: 461 G 461
G
Sbjct: 290 G 290
>gi|54025745|ref|YP_119987.1| RNA polymerase sigma factor SigB [Nocardia farcinica IFM 10152]
gi|54017253|dbj|BAD58623.1| putative principal sigma factor [Nocardia farcinica IFM 10152]
Length = 322
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L +Q L+E +K +
Sbjct: 24 DLVRVYLNGIGRTALLTAADEVELAKRIE---------AGLYAQH-----LLETSKRLSA 69
Query: 315 SCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ + DL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 70 AKKKDLAMIVRDGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 129
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 130 DYTKGFKFST 139
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 244 AVIAGLLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 303
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 304 VMAKLRKG 311
>gi|296393377|ref|YP_003658261.1| RpoD subfamily RNA polymerase sigma-70 factor [Segniliparus
rotundus DSM 44985]
gi|296180524|gb|ADG97430.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Segniliparus
rotundus DSM 44985]
Length = 377
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/132 (37%), Positives = 71/132 (53%), Gaps = 19/132 (14%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---KEKSKLQSQFGREPTLIEWAKA 311
D +R++L G LLTA +E EL I+ + E K L Q RE
Sbjct: 79 DLVRVYLNGIGRTALLTAADEVELAKSIEAGLYAEHLLKTSDNLTPQRRRE--------- 129
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
LK+ G ++R L+ ANLRLVV +AK+Y GRGI L DL+QEG++GL++++E
Sbjct: 130 -------LKTVARDGQAARTHLLEANLRLVVSLAKRYTGRGIPLLDLIQEGNLGLIRAME 182
Query: 372 KFKPQAGCRFAN 383
KF G +F+
Sbjct: 183 KFDYAKGFKFST 194
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 47/66 (71%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V + + VR +L LN E+ ++RLR+G++DG+P++L ++G +F LS+ERVRQ+E
Sbjct: 299 AVIAGFLHRDVRTVLATLNEVEQQVIRLRYGLDDGQPRTLDQIGKVFSLSRERVRQIERE 358
Query: 452 ALYRLK 457
+ +L+
Sbjct: 359 VMVKLR 364
>gi|148242708|ref|YP_001227865.1| sigma-70 family RNA polymerase sigma factor [Synechococcus sp.
RCC307]
gi|147851018|emb|CAK28512.1| Alternative RNA polymerase sigma factor, sigma-70 family
[Synechococcus sp. RCC307]
Length = 301
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 43/116 (37%), Positives = 68/116 (58%), Gaps = 19/116 (16%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
KLLT ++E L ++Q ++ L+ + + S+ D K L G
Sbjct: 17 KLLTPEQELTLGRKVQAMVPLQDKPVESLSE-------------------DEKRALRLGE 57
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEKF P G RF+
Sbjct: 58 RAKNQMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKFDPTRGHRFST 113
Score = 39.7 bits (91), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 35/53 (66%), Gaps = 3/53 (5%)
Query: 409 LNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER +V LRFG+ DG + ++L+EV S+E RQ+ R+L +L+++
Sbjct: 239 LTPKERTVVMLRFGL-DGTNEWRTLAEVARQMSCSREYCRQVVQRSLRKLRRA 290
>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 = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/117 (41%), Positives = 74/117 (63%), Gaps = 17/117 (14%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ SG
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDE--------VIDLTSEIKSGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F+
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFS 434
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/192 (26%), Positives = 90/192 (46%), Gaps = 33/192 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ I+ + ++ +E +L + GREP E A +G S +K
Sbjct: 460 VHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQ----------------- 502
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
V +VA++ ISL + E L+ G + GVE P + L+
Sbjct: 503 --VKNVARE----PISLETPIGEEEDTLL----------GDLIEDKGVENPSNRTELTLL 546
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 547 QEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRH 606
Query: 459 SLGGKASYGYAD 470
+ Y D
Sbjct: 607 PKRSRKLKDYLD 618
>gi|317506483|ref|ZP_07964284.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC
BAA-974]
gi|316255244|gb|EFV14513.1| RNA polymerase sigma factor RpoD [Segniliparus rugosus ATCC
BAA-974]
Length = 452
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 77/130 (59%), Gaps = 11/130 (8%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAIG 313
D +R +L LL A++E EL +I+ + +E+ ++ ++ G R PT
Sbjct: 150 DSVRAYLKQIGKVALLNAEQEVELAKRIEAGL-YAQERLRIATEEGDRLPTT-------- 200
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RD+ + GN ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 201 -SRRDMNWVVRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKF 259
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 260 DYSKGYKFST 269
Score = 65.5 bits (158), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L++ ++ +L L+ +E +VR+RFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 374 AVSFTLLQDQLQAVLETLSEREAGVVRMRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 433
Query: 452 ALYRLK 457
+ +L+
Sbjct: 434 TMSKLR 439
>gi|154484558|ref|ZP_02027006.1| hypothetical protein EUBVEN_02272 [Eubacterium ventriosum ATCC
27560]
gi|149734406|gb|EDM50323.1| RNA polymerase sigma factor RpoD [Eubacterium ventriosum ATCC
27560]
Length = 429
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 63/207 (30%), Positives = 92/207 (44%), Gaps = 47/207 (22%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTADEE EL
Sbjct: 149 LLEGVGTEDPVRMYLKEIGTVPLLTADEELELA--------------------------- 181
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
K + ++EKLI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 182 -------------KRKTEGDIVAKEKLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 228
Query: 367 MKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL-----RF 421
+K VEKF G + + SV + L H R + ++ E I R+ +
Sbjct: 229 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALA-DHARTIRVPVHMVE-TINRMSKMQRKL 286
Query: 422 GIEDGKPKSLSEVGNIFGLSKERVRQL 448
+E G S E+ +++E+V ++
Sbjct: 287 TLELGYEPSTKELATALDMTEEKVLEI 313
Score = 75.1 bits (183), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 57/86 (66%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G A+ P+ +++ ++R+H+ LL L +ER ++ LRFG+ DG P++L EVG I
Sbjct: 336 GDFVADNNTVTPEANIESVMLREHIDVLLQDLKDREREVIILRFGLRDGHPRTLEEVGKI 395
Query: 438 FGLSKERVRQLESRALYRLKQSLGGK 463
F +++ER+RQ+E++AL +L+ + K
Sbjct: 396 FNVTRERIRQIEAKALRKLRNPVRSK 421
>gi|392404353|ref|YP_006440965.1| RNA polymerase, sigma 70 subunit, RpoD [Turneriella parva DSM
21527]
gi|390612307|gb|AFM13459.1| RNA polymerase, sigma 70 subunit, RpoD [Turneriella parva DSM
21527]
Length = 651
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 54/181 (29%), Positives = 99/181 (54%), Gaps = 23/181 (12%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIE--WAKAIGLSCRDLKSELHSGNSSREKLINANLR 339
I+D+ E++ +++ + G PTLI W + I R++ ++++++LINANLR
Sbjct: 371 IKDIRNNERKLRRMEQEAG-SPTLIILLWGEKIARGQREI-------DAAKKELINANLR 422
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMR 399
LVV +AK++ RG+ DL+QEG++GLM++VEKF+ + G +F+ ++ + L
Sbjct: 423 LVVSIAKRFANRGMHFFDLIQEGNIGLMRAVEKFEYRKGYKFSTYATWWIRQAITRALSE 482
Query: 400 Q--------HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
Q H+ + +N + R ++ E G+ S E+G G +V+Q++S
Sbjct: 483 QARTIRIPSHMIEQINKVNREARIFLQ-----ETGREPSDDEIGERLGWPVIKVKQVKSV 537
Query: 452 A 452
A
Sbjct: 538 A 538
Score = 60.8 bits (146), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 49/69 (71%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P S + ++ + ++ +L L +E+ ++R+RFG++DG +L EVG +F +++ER+RQ+
Sbjct: 568 PLQSTAQSILAEQLKQVLATLPAREQKVIRMRFGLDDGYTHTLEEVGYVFKVTRERIRQI 627
Query: 449 ESRALYRLK 457
E++AL RL+
Sbjct: 628 EAKALRRLR 636
>gi|334337294|ref|YP_004542446.1| RpoD subfamily RNA polymerase sigma-70 subunit [Isoptericola
variabilis 225]
gi|334107662|gb|AEG44552.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Isoptericola
variabilis 225]
Length = 547
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/134 (35%), Positives = 75/134 (55%), Gaps = 13/134 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E+ +L +FG W K
Sbjct: 239 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEE---RLSKEFGEG-----WDKTKAS 290
Query: 315 S-----CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ RDL+ H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++
Sbjct: 291 AEERRLYRDLQWIAHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRA 350
Query: 370 VEKFKPQAGCRFAN 383
VEKF G +F+
Sbjct: 351 VEKFDYTKGYKFST 364
Score = 68.9 bits (167), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 52/70 (74%)
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
+P +V L+++ + +L L+ +E +V +RFG++DG+PK+L E+G ++G+++ER+RQ
Sbjct: 465 VPADAVSFTLLQEQLHQVLDTLSEREAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIRQ 524
Query: 448 LESRALYRLK 457
+ES+ + +L+
Sbjct: 525 IESKTMSKLR 534
>gi|297605001|ref|NP_001056480.2| Os05g0589200 [Oryza sativa Japonica Group]
gi|255676623|dbj|BAF18394.2| Os05g0589200, partial [Oryza sativa Japonica Group]
Length = 464
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 59/110 (53%), Gaps = 1/110 (0%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
E+ L+ I++ LEK + L G E + WAKA G+ L+S L G RE+L
Sbjct: 265 EQSALLVTIKECANLEKIRENLLKD-GSEVSHASWAKAAGIDEALLRSRLQEGYCCRERL 323
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ LV ++AK Y G G + DLLQ G MG++ EKF Q GC+F+
Sbjct: 324 LVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFST 373
>gi|394988975|ref|ZP_10381810.1| RNA polymerase sigma factor RpoS [Sulfuricella denitrificans skB26]
gi|393792354|dbj|GAB71449.1| RNA polymerase sigma factor RpoS [Sulfuricella denitrificans skB26]
Length = 319
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 53/169 (31%), Positives = 89/169 (52%), Gaps = 21/169 (12%)
Query: 287 RLE-KEKSKLQSQFGREPTLIEWAKAIG------------LSCRDLKSELHSGNSSREKL 333
RLE E S L + +PTLI + IG L+CR ++ + +R+++
Sbjct: 31 RLEVPELSDLPGESRHDPTLI-YLNEIGQNALLTATEEYSLACRVIQGDF----EARQRM 85
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISV 393
I NLRLVV+VAK Y RG++L DL++EG++GL+ ++EKF P+ G RF+ ++
Sbjct: 86 IECNLRLVVNVAKHYVNRGMALLDLIEEGNLGLIHALEKFDPERGFRFSTYATWWIRQNI 145
Query: 394 QKQLMRQH--VRNLLTLLNPKERCIVRLR-FGIEDGKPKSLSEVGNIFG 439
++ +M Q +R + ++ C+ R G S+ EV ++ G
Sbjct: 146 ERAIMNQSRTIRIPVHVIREMNTCLQAFRHLESHKGNEPSVEEVAHMLG 194
Score = 48.9 bits (115), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 43/76 (56%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P++ +Q + VR L L K+R ++ RFG+ +L EV + G+++ERVRQ+
Sbjct: 237 PELQLQHTELEALVRQWLEELGDKQRRVIERRFGLNGHAIHTLEEVADTLGITRERVRQI 296
Query: 449 ESRALYRLKQSLGGKA 464
+ AL L++SL K
Sbjct: 297 QVEALKLLRRSLKRKG 312
>gi|440754318|ref|ZP_20933520.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
gi|440174524|gb|ELP53893.1| RNA polymerase sigma factor [Microcystis aeruginosa TAIHU98]
Length = 422
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 58/208 (27%), Positives = 99/208 (47%), Gaps = 45/208 (21%)
Query: 280 AQIQDLIRLEKEKSKLQ--------SQFGREPTLIEWAKAIGLSCRDLKSELHSG----- 326
Q+Q ++L K +L ++ P+L WA+ ++ +LK+ L +G
Sbjct: 104 TQVQQFVKLIKICDRLTALRLLSGSTRSAHRPSLEIWAETAQITVSELKNALKAGKQRWA 163
Query: 327 -----------------NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++E++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL +
Sbjct: 164 HLAGLEVEELEEIIALSTCAKEQMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLECA 223
Query: 370 VEKFKPQAGCRFAN-------TGVEIPDISVQKQLMR--QHVRNLLTLLNPKERCIVRLR 420
V+KF P G F G+ I+ Q +++R + L + +R I ++R
Sbjct: 224 VKKFDPTKGYHFTTYAYWWIRQGI-TKAIATQSRIIRLPVSITEKLNRIRKTQRKISQMR 282
Query: 421 FGIEDGKPKSLSEVGNIFGLSKERVRQL 448
G+ ++ E+ G++ E VR+L
Sbjct: 283 -----GRTATVEEIAQELGMTPETVREL 305
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 43/62 (69%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+++ +R LL L +ER ++ R+G DGK SL+++G I LS ERVR++E +AL +L+
Sbjct: 347 LQRDMRELLADLTTREREVIEWRYGFLDGKSHSLADIGRILELSGERVRKIELKALQKLR 406
Query: 458 QS 459
QS
Sbjct: 407 QS 408
>gi|163847594|ref|YP_001635638.1| sigma-70 family RNA polymerase sigma factor [Chloroflexus
aurantiacus J-10-fl]
gi|222525449|ref|YP_002569920.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus sp.
Y-400-fl]
gi|163668883|gb|ABY35249.1| RNA polymerase sigma factor, sigma-70 family [Chloroflexus
aurantiacus J-10-fl]
gi|222449328|gb|ACM53594.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus sp.
Y-400-fl]
Length = 345
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/118 (40%), Positives = 68/118 (57%), Gaps = 19/118 (16%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRD---LKSELHS 325
LLTA EE EL +I+ ++ ++Q A A L+ R+ L +
Sbjct: 61 LLTAAEEIELAERIE-------RGNEAEAQL---------ATATDLTPRERYELLQAVQQ 104
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +R LI ANLRLVV +AK+Y GRG++L DL+QEG++GLM++VEKF G RF+
Sbjct: 105 GEEARRHLIQANLRLVVSIAKKYVGRGLALLDLIQEGNIGLMRAVEKFDYHKGNRFST 162
Score = 61.6 bits (148), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 53/77 (68%), Gaps = 4/77 (5%)
Query: 384 TGVEIP---DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
T E+P +++ QK L+R+ + L LN +ER I+ LR+G+ DG+ ++L EVG + G+
Sbjct: 257 TDEELPTPGEMAAQK-LLRRDLCAALDRLNDRERRIIDLRYGLVDGRRRTLEEVGRVLGM 315
Query: 441 SKERVRQLESRALYRLK 457
++ER RQ+E+ AL RL+
Sbjct: 316 TRERARQIEAEALRRLR 332
>gi|49328110|gb|AAT58808.1| hypothetical protein [Oryza sativa Japonica Group]
Length = 799
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/109 (38%), Positives = 59/109 (54%), Gaps = 1/109 (0%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
E+ L+ I++ LEK + L G E + WAKA G+ L+S L G RE+L
Sbjct: 507 EQSALLVTIKECANLEKIRENLLKD-GSEVSHASWAKAAGIDEALLRSRLQEGYCCRERL 565
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+ LV ++AK Y G G + DLLQ G MG++ EKF Q GC+F+
Sbjct: 566 LVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFS 614
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/183 (27%), Positives = 95/183 (51%), Gaps = 34/183 (18%)
Query: 276 FELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
+L A+++ +IR +E + ++ GR P E A IG+S
Sbjct: 636 IQLPARMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSV------------------ 677
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
AN+RL A++ R +SL+ E +G + P +T +E PD ++
Sbjct: 678 -ANVRL----ARKCSRRVVSLY---TEIGVGQNAKFVEVTP-------DTSLEAPDEAMF 722
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
+ +R+ + ++L L P+E +++LR G+EDGK +SL ++G+I+ +SKE +R++E A+
Sbjct: 723 RMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIRKIEKSAMS 782
Query: 455 RLK 457
+L+
Sbjct: 783 KLR 785
>gi|41408924|ref|NP_961760.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp.
paratuberculosis K-10]
gi|41397283|gb|AAS05143.1| SigB [Mycobacterium avium subsp. paratuberculosis K-10]
Length = 332
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 34 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 79
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 80 NRKRDLEAVVRDGQAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 139
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 140 DYTKGFKFST 149
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 254 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 313
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 314 VMSKLRNG 321
>gi|381162242|ref|ZP_09871472.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
gi|379254147|gb|EHY88073.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
azurea NA-128]
Length = 514
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 73/136 (53%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQD-------LIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ L +E+E KL +Q
Sbjct: 212 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERLRVVEEEGEKLSTQM-------- 263
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 264 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 315
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 316 RAVEKFDYTKGFKFST 331
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 358 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 399
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 400 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 441
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 442 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 501
>gi|309782329|ref|ZP_07677056.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA]
gi|404378021|ref|ZP_10983121.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_2_56FAA]
gi|308918947|gb|EFP64617.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_7_47FAA]
gi|348615952|gb|EGY65460.1| RNA polymerase sigma factor RpoS [Ralstonia sp. 5_2_56FAA]
Length = 378
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P+ G RF+
Sbjct: 137 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATW 196
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L DG+ SL ++ ++ G +
Sbjct: 197 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTT 256
Query: 443 ERVRQLES 450
E V+ + S
Sbjct: 257 EEVQDVLS 264
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q +++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 296 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELAAEMGLTRERVRQI 355
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 356 QQEALVKLKRHFASQG 371
>gi|254526924|ref|ZP_05138976.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT
9202]
gi|221538348|gb|EEE40801.1| sigma-70 factor family protein [Prochlorococcus marinus str. MIT
9202]
Length = 307
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 59/200 (29%), Positives = 106/200 (53%), Gaps = 18/200 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT + E + ++Q+++ L ++ Q G+ P E+++A + ++ G
Sbjct: 15 QLLTPERELTMGRKVQEMVVL---VNRCQEAGGKGPA-CEYSEA-------ERKKIKIGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 64 KAKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFSTYAYW 123
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE-----DGKPKSLSEVGNIFGLSK 442
+ + L Q R + +N E+ + +LR G P + E+ ++K
Sbjct: 124 WIRQGLNRALSTQS-RTIRIPVNINEK-LTKLRSAKSKLMQLKGIPPTSDELAEEMKITK 181
Query: 443 ERVRQLESRALYRLKQSLGG 462
E + +L S L + SL G
Sbjct: 182 EEIDELLSCELRSITVSLQG 201
>gi|383767261|ref|YP_005446242.1| RNA polymerase sigma factor [Phycisphaera mikurensis NBRC 102666]
gi|381387529|dbj|BAM04345.1| RNA polymerase sigma factor [Phycisphaera mikurensis NBRC 102666]
Length = 348
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/65 (53%), Positives = 47/65 (72%), Gaps = 1/65 (1%)
Query: 323 LHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+H G +SRE +I ANLRLVV +AK+YQ RG+ L DL+ EG++GLM+ VE F P+ G RF
Sbjct: 57 IHEGCMASREHMIRANLRLVVMIAKRYQNRGMLLQDLINEGNVGLMRGVEGFDPEYGARF 116
Query: 382 ANTGV 386
+ G
Sbjct: 117 STYGC 121
Score = 57.4 bits (137), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 94/217 (43%), Gaps = 38/217 (17%)
Query: 249 EGFDRNDPLRLFLWG------PETRKLLTADEEFELIAQIQDLI-RLEKEKSKLQSQFGR 301
EGFD R +G R L+ + + + A + +LI R +KE L + GR
Sbjct: 106 EGFDPEYGARFSTYGCWWIKQAIKRALINSGQPVHIPAYMVELIARWKKETRNLTDELGR 165
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
P + E A+ R ++ +R V+ A ++ +QE
Sbjct: 166 SPEIDELAE-------------------RMEVTEKKVRFVIKAA-------VAKKRPMQE 199
Query: 362 GSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRF 421
G E P G A+ P+ V + VR LL ++ +E I+RLRF
Sbjct: 200 SDGG-----EGSPPTLGQLLADDQQPGPEDRVVHEDNLNTVRQLLDAIDEREAKILRLRF 254
Query: 422 GIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
G++ +P +L ++G GL++ERVRQ+E AL +L +
Sbjct: 255 GLDGEEPLTLKQIGTHVGLTRERVRQIEIEALRKLNE 291
>gi|170782897|ref|YP_001711231.1| RNA polymerase principal sigma factor HrdD [Clavibacter
michiganensis subsp. sepedonicus]
gi|169157467|emb|CAQ02657.1| RNA polymerase principal sigma factor HrdD [Clavibacter
michiganensis subsp. sepedonicus]
Length = 347
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 50/67 (74%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+ ++ G +++ L+NANLRLVV +AK+Y GRG+ DL+QEG+MGL+++VEKF Q
Sbjct: 98 REYQTLAQDGMRAKQHLVNANLRLVVSIAKRYTGRGLPFLDLIQEGNMGLVRAVEKFDYQ 157
Query: 377 AGCRFAN 383
AG +F+
Sbjct: 158 AGFKFST 164
Score = 55.1 bits (131), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 43/65 (66%)
Query: 393 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 452
V +QLM HV L+ L ++ +VR+RFG+ +P+SL+ V G+++ERVRQ+E +
Sbjct: 273 VTQQLMAAHVTRLIDGLAERDAEVVRMRFGLAGLEPRSLAFVSQQLGVTRERVRQIEKKV 332
Query: 453 LYRLK 457
L +L+
Sbjct: 333 LAKLR 337
>gi|241662747|ref|YP_002981107.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12D]
gi|240864774|gb|ACS62435.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ralstonia
pickettii 12D]
Length = 378
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P+ G RF+
Sbjct: 137 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATW 196
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L DG+ SL ++ ++ G +
Sbjct: 197 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTT 256
Query: 443 ERVRQLES 450
E V+ + S
Sbjct: 257 EEVQDVLS 264
Score = 50.8 bits (120), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q +++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 296 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELAAEMGLTRERVRQI 355
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 356 QQEALVKLKRHFASQG 371
>gi|148657222|ref|YP_001277427.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1]
gi|148569332|gb|ABQ91477.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp.
RS-1]
Length = 349
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 35/65 (53%), Positives = 49/65 (75%)
Query: 319 LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
L ++ +G +R LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++VEKF + G
Sbjct: 102 LLDDVAAGQEARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKG 161
Query: 379 CRFAN 383
RF+
Sbjct: 162 NRFST 166
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 51/80 (63%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G ++ + P + QL+R+ + L LN +ER I+ LR+G+ DG+ ++L EVG +
Sbjct: 257 GDFLQDSDLPTPVEAASHQLLRRDLAAALDRLNERERRIIDLRYGLVDGQRRTLEEVGRV 316
Query: 438 FGLSKERVRQLESRALYRLK 457
G+++ER RQ+E+ AL RL+
Sbjct: 317 LGMTRERARQIEAEALRRLR 336
>gi|359419322|ref|ZP_09211280.1| RNA polymerase sigma factor SigB [Gordonia araii NBRC 100433]
gi|358244729|dbj|GAB09349.1| RNA polymerase sigma factor SigB [Gordonia araii NBRC 100433]
Length = 321
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG- 313
D +R++L G LL A++E EL QI+ + L ++ ++ K IG
Sbjct: 23 DLVRVYLNGIGRTALLNAEQEVELAKQIE---------AGLYAKH-----VLATRKRIGP 68
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 69 VRKRDLNQIVREGEQARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 128
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 129 DYAKGFKFST 138
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 47/61 (77%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+ +R++L L+ +E+ ++R+R+G++DG+P++L ++G FGLS+ERVRQ+E + +L
Sbjct: 248 LLHSDIRSVLATLDDREQQVIRMRYGLDDGQPRTLDQIGRAFGLSRERVRQIEREVMVKL 307
Query: 457 K 457
+
Sbjct: 308 R 308
>gi|340787099|ref|YP_004752564.1| RNA polymerase sigma factor RpoS [Collimonas fungivorans Ter331]
gi|340552366|gb|AEK61741.1| RNA polymerase sigma factor RpoS [Collimonas fungivorans Ter331]
Length = 341
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 44/129 (34%), Positives = 77/129 (59%), Gaps = 6/129 (4%)
Query: 326 GN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
GN +R+K+I NLRLVV +AK Y RG++L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 97 GNFEARQKMIEHNLRLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTY 156
Query: 385 GVEIPDISVQKQLMRQHVRNLLTLLNPKE-RCIVRLRFGIE----DGKPKSLSEVGNIFG 439
S+++ +M Q L + +E I+R ++ +E DGK S ++ ++
Sbjct: 157 ATWWIRQSIERAIMNQARTVRLPVHMVRELNQILRAKYHLEAQHHDGKDASAEDIAHLVD 216
Query: 440 LSKERVRQL 448
E V+ +
Sbjct: 217 RPVEDVQDV 225
Score = 58.5 bits (140), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 47/78 (60%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD ++Q M VR L L K+R ++ RFG+++ P +L E+ G+++ERVR
Sbjct: 257 ENPDSRAEQQEMSILVRVWLEKLTDKQRNVIMRRFGLDNDDPSTLEELAAEIGVTRERVR 316
Query: 447 QLESRALYRLKQSLGGKA 464
Q++ AL +LK+ LG K
Sbjct: 317 QIQQEALLKLKRLLGAKG 334
>gi|365842430|ref|ZP_09383441.1| RNA polymerase sigma factor RpoD [Flavonifractor plautii ATCC
29863]
gi|364575646|gb|EHM53025.1| RNA polymerase sigma factor RpoD [Flavonifractor plautii ATCC
29863]
Length = 453
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/144 (34%), Positives = 79/144 (54%), Gaps = 18/144 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L + F +DP+R++L LLT DEE +L QD+ + K +++ +
Sbjct: 138 LVDSFGIDDPVRMYLKEIGKVNLLTPDEEIQLA---QDMGAGDAAKEQMEE--------L 186
Query: 307 EWAKAIGLSCRD-------LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
E A+ G L+ + G +++++L ANLRLVV +AK+Y GRG+ DL+
Sbjct: 187 EQARKNGEEVSLTEEEEKELRRLVKRGEAAKQRLAEANLRLVVSIAKRYVGRGMLFLDLI 246
Query: 360 QEGSMGLMKSVEKFKPQAGCRFAN 383
QEG++GL+K+VEKF G +F+
Sbjct: 247 QEGNLGLIKAVEKFDYTKGYKFST 270
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++ER+RQ+E++AL +L
Sbjct: 380 LLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKL 439
Query: 457 K 457
+
Sbjct: 440 R 440
>gi|237785656|ref|YP_002906361.1| RNA polymerase sigma factor SigB [Corynebacterium kroppenstedtii
DSM 44385]
gi|237758568|gb|ACR17818.1| RNA polymerase sigma factor B [Corynebacterium kroppenstedtii DSM
44385]
Length = 326
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL +I+ + L +Q L+E +
Sbjct: 29 DLVRVYLNGIGRTALLNAEDEVELSQRIE---------AGLYAQH-----LLESDEQFTP 74
Query: 315 SC-RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
S RDLK+ G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL+++VEKF
Sbjct: 75 SKKRDLKAVAKDGRAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAVEKF 134
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 135 DYTKGFKFST 144
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 46/68 (67%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +R +L L +E+ ++RLRFG++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 249 AVVASLRHSDIRTVLATLEKREQDVIRLRFGLDDGVPRTLDQIGREFGLSRERVRQIERE 308
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 309 VMAKLRKG 316
>gi|332297995|ref|YP_004439917.1| RpoD subfamily RNA polymerase sigma-70 subunit [Treponema
brennaborense DSM 12168]
gi|332181098|gb|AEE16786.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Treponema
brennaborense DSM 12168]
Length = 599
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 43/115 (37%), Positives = 74/115 (64%), Gaps = 11/115 (9%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGNS 328
++ADE E+ QIQ +++++ +L+ +F + + ++ AK I R +K
Sbjct: 312 MSADEIREVYTQIQ---KIDRKLRRLEYEFENDVSEILSMAKEIDRGRRMMKE------- 361
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +LINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F+
Sbjct: 362 AKNRLINANLRLVVSIAKKYTNRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFST 416
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 56/191 (29%), Positives = 92/191 (48%), Gaps = 38/191 (19%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
+I QI ++R E +L +FGREPT E A +G +K
Sbjct: 443 MIEQINKVVR---ESRQLMQRFGREPTDEEIAAQLGWPVNRVKQ---------------- 483
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
V VA++ ISL + E L+ G + VE P +
Sbjct: 484 ---VKSVARE----PISLETPIGEEEDSLL----------GDFIEDKEVENPAAKTAYTM 526
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ H+R++L L P+E+ ++++RFG++DG +L EVG F +++ER+RQ+E++AL RL+
Sbjct: 527 LQDHLRSILATLPPREQEVLKMRFGLDDGFSLTLEEVGLYFNVTRERIRQIEAKALRRLR 586
Query: 458 --QSLGGKASY 466
+ GG Y
Sbjct: 587 HPRRSGGLRDY 597
>gi|254821657|ref|ZP_05226658.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|379748152|ref|YP_005338973.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|379755443|ref|YP_005344115.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-02]
gi|379762989|ref|YP_005349386.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-64]
gi|387876818|ref|YP_006307122.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MOTT36Y]
gi|406031681|ref|YP_006730572.1| RNA polymerase sigma factor sigB [Mycobacterium indicus pranii MTCC
9506]
gi|443306610|ref|ZP_21036398.1| RNA polymerase sigma factor SigB [Mycobacterium sp. H4Y]
gi|378800516|gb|AFC44652.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare ATCC
13950]
gi|378805659|gb|AFC49794.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-02]
gi|378810931|gb|AFC55065.1| RNA polymerase sigma factor SigB [Mycobacterium intracellulare
MOTT-64]
gi|386790276|gb|AFJ36395.1| RNA polymerase sigma factor SigB [Mycobacterium sp. MOTT36Y]
gi|405130228|gb|AFS15483.1| RNA polymerase sigma factor sigB [Mycobacterium indicus pranii MTCC
9506]
gi|442768174|gb|ELR86168.1| RNA polymerase sigma factor SigB [Mycobacterium sp. H4Y]
Length = 319
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLEAVVRDGKAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMSKLRNG 308
>gi|223975681|gb|ACN32028.1| unknown [Zea mays]
gi|413946741|gb|AFW79390.1| hypothetical protein ZEAMMB73_416951 [Zea mays]
Length = 565
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 88/309 (28%), Positives = 144/309 (46%), Gaps = 59/309 (19%)
Query: 95 ETEAFFVEEKNSG-DLDQLVQDLEHQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTE 153
ETE++ EE +S D D DL ++ L M+ E+ SL + L D
Sbjct: 113 ETESWMDEETSSWMDRDLTDSDLRYRLL-----------MQNLEELETSLVGKDLEMDIL 161
Query: 154 ESVDA-EPFDA-VALARKALSASKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFS 211
E + A F+A VA AL + SL ++P+ E T PL+ ++ S
Sbjct: 162 EQLGALGSFNASVARGVSALHGRPDG-SLLDDPE---PETT----------PLDAGQEDS 207
Query: 212 QPRFLER-RSKKRKVSKPQVTNHETYN--------------SRKASVKKKLSEGFDRNDP 256
Q + +S++RK+ + + ++ E + SRKAS + +SE
Sbjct: 208 QVVVVRSGKSQERKLRRMRASSDEKGSRTSVKVNPPRRPKKSRKASSSQFISE------- 260
Query: 257 LRLFLWG--PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
W P R+++ E+ L++ I++ LEK + K+ + G+E + WA+A G+
Sbjct: 261 -----WKSHPGQRRIIVR-EQSALLSTIKECAGLEKIREKMVKE-GQEVSYHRWAEAAGV 313
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+L S L +G R++L+ LV +A+ Y G G +L DLLQ G MG++ EKF
Sbjct: 314 DEAELVSRLQAGYCCRDRLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFD 373
Query: 375 PQAGCRFAN 383
+ GCRF+
Sbjct: 374 SRKGCRFST 382
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 48/77 (62%), Gaps = 7/77 (9%)
Query: 388 IPDISV---QKQLMRQHVRNLLTL----LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
IPD S + L R +R L L L +E ++RLR G+EDG+ +SL E+G I+G+
Sbjct: 476 IPDESASPDEAALFRGQLRERLLLVLGRLPAREGRVLRLRHGLEDGRCRSLEEIGGIYGV 535
Query: 441 SKERVRQLESRALYRLK 457
SKE +R++E A+ RL+
Sbjct: 536 SKEWIRKIEKSAMARLR 552
>gi|118463509|ref|YP_882780.1| RNA polymerase sigma factor SigB [Mycobacterium avium 104]
gi|254776043|ref|ZP_05217559.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp. avium
ATCC 25291]
gi|440778274|ref|ZP_20957040.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp.
paratuberculosis S5]
gi|118164796|gb|ABK65693.1| sigma factor SigB [Mycobacterium avium 104]
gi|436721377|gb|ELP45512.1| RNA polymerase sigma factor SigB [Mycobacterium avium subsp.
paratuberculosis S5]
Length = 319
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLEAVVRDGQAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMSKLRNG 308
>gi|383831200|ref|ZP_09986289.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
gi|383463853|gb|EID55943.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
xinjiangensis XJ-54]
Length = 468
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRL-EKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ + +R+ E+E KL +Q
Sbjct: 166 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERLRVAEEEGEKLSTQM-------- 217
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 218 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 269
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 270 RAVEKFDYTKGFKFST 285
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 312 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 353
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 354 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 395
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 396 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 455
>gi|296171822|ref|ZP_06852936.1| RNA polymerase principal sigma factor SigB [Mycobacterium
parascrofulaceum ATCC BAA-614]
gi|295893958|gb|EFG73726.1| RNA polymerase principal sigma factor SigB [Mycobacterium
parascrofulaceum ATCC BAA-614]
Length = 329
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 31 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 76
Query: 315 SCR-DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R DL++ + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 77 NRRRDLEAVVRDGQAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 136
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 137 DYTKGFKFST 146
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 251 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 310
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 311 VMSKLRHG 318
>gi|187928144|ref|YP_001898631.1| RNA polymerase sigma factor RpoS [Ralstonia pickettii 12J]
gi|187725034|gb|ACD26199.1| RNA polymerase, sigma 70 subunit, RpoD family [Ralstonia pickettii
12J]
Length = 378
Score = 77.0 bits (188), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 45/128 (35%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P+ G RF+
Sbjct: 137 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATW 196
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L DG+ SL ++ ++ G +
Sbjct: 197 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGVDGRDASLEDIAHLLGKTT 256
Query: 443 ERVRQLES 450
E V+ + S
Sbjct: 257 EEVQDVLS 264
Score = 50.8 bits (120), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q +++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 296 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNYIEPATLEELAAEMGLTRERVRQI 355
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 356 QQEALVKLKRHFASQG 371
>gi|339499649|ref|YP_004697684.1| RpoD subfamily RNA polymerase sigma-70 subunit [Spirochaeta
caldaria DSM 7334]
gi|338833998|gb|AEJ19176.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Spirochaeta
caldaria DSM 7334]
Length = 346
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 61/208 (29%), Positives = 106/208 (50%), Gaps = 15/208 (7%)
Query: 245 KKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT 304
KK S+ DPL ++L LL+ DEE + +I + L +E + L ++
Sbjct: 37 KKTSKTLKEADPLAMYLKQISRFPLLSGDEEQAIGEKI---VHLREEIAHLDERYHENLQ 93
Query: 305 LIEWAKAIGLSCRDLKSELHSG-NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
E+ K + +L + + K+IN+NLRLVV +AK YQ RG+SL DL+ EG+
Sbjct: 94 DPEYKKE--------RVQLDNALMYYKNKMINSNLRLVVSIAKNYQHRGLSLLDLIDEGN 145
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRF 421
+GL+++VE+F CRF+ G ++ K L + +R + +LN ++C +
Sbjct: 146 IGLIEAVERFDYTRKCRFSTYGTWWIRQAIIKSLADKGRVIRIPIHMLNTIKKCYFIAKQ 205
Query: 422 GIED-GKPKSLSEVGNIFGLSKERVRQL 448
+D G+ S E+ G+ +V+++
Sbjct: 206 LTQDLGRDPSDEELSEYLGVPVSKVKEI 233
Score = 49.7 bits (117), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 40/54 (74%)
Query: 404 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++L+ L+ +E I++LRFG+ P +L E G + G+++ERVRQ++ +A+++L+
Sbjct: 282 SVLSHLSEREVKIIQLRFGLTGEGPLTLEETGKLLGITRERVRQIQEKAIFKLR 335
>gi|78778962|ref|YP_397074.1| type II alternative sigma-70 family RNA polymerase sigma factor
[Prochlorococcus marinus str. MIT 9312]
gi|78712461|gb|ABB49638.1| putative type II alternative sigma factor, sigma70 family
[Prochlorococcus marinus str. MIT 9312]
Length = 307
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 41/116 (35%), Positives = 74/116 (63%), Gaps = 11/116 (9%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLT + E + ++Q+++ L ++ Q G+ P E+++A + ++ G
Sbjct: 15 QLLTPERELTMGRKVQEMVVL---VNRCQEAGGKGPA-CEYSEA-------ERKKIKIGE 63
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ ++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 64 KAKNEMITANLRLVVNLAKRYQGKGLELLDLIQEGTLGLTRAVEKYDPSRGHRFST 119
>gi|356565804|ref|XP_003551127.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 551
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 38/86 (44%), Positives = 58/86 (67%)
Query: 386 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 445
+E P+ +V KQ MR+ V +LL LN +ER I+ LRFG+ D +P+SL ++G +F +SKER+
Sbjct: 466 IESPEDAVMKQHMRKDVHDLLKGLNLRERKILTLRFGLNDNQPRSLQDIGTLFKVSKERI 525
Query: 446 RQLESRALYRLKQSLGGKASYGYADL 471
R++E +AL +LK + Y DL
Sbjct: 526 RKIEKKALTKLKNEATISKLHYYLDL 551
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/218 (27%), Positives = 109/218 (50%), Gaps = 14/218 (6%)
Query: 176 EAASLAENPKLNGAEFTDISLTSSLGYPL-----EEVKQFSQPRFLERRSKKRKVSKPQV 230
E A + + KL E ++ L+ SLG L ++V + ++ KK ++ +
Sbjct: 154 EKAIILQLGKLGALELFNVCLSRSLGTSLVSNYADKVDDYKDKVVVQSSKKKENKTRRKR 213
Query: 231 TNHETYNSRKASVKKKLSE---GFDRNDPLRLFLWGPETR--KLLTADEEFELIAQIQDL 285
T S ++ K E GF + L P T+ ++L A E E+ ++ L
Sbjct: 214 EFVSTAVSSQSLTLKANQEDLLGFSAS----LVKRAPNTKNKRILVAKREAEMSKGVKVL 269
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
LEK ++ ++ R +L WA+A G+ + L+ LH G +++LI + LV+++A
Sbjct: 270 AELEKIRTAIEEDTKRVASLSTWAEASGVDEKVLQKLLHRGYYCQDELIRSTRSLVLYLA 329
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++Y+G GI+L DLLQ G +G+++ E+F G +F+
Sbjct: 330 RKYRGMGIALDDLLQAGYVGVLQGAERFDSTRGYKFST 367
>gi|408677973|ref|YP_006877800.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae
ATCC 10712]
gi|328882302|emb|CCA55541.1| RNA polymerase principal sigma factor HrdA [Streptomyces venezuelae
ATCC 10712]
Length = 336
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 55/74 (74%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ ++L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 263 LLRRHLEDVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLGKL 322
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 323 RDHAYADQLRGYLD 336
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 33/66 (50%), Positives = 48/66 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ KLI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 88 DLDRLVVLGRIAKRKLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 147
Query: 378 GCRFAN 383
G +F+
Sbjct: 148 GYKFST 153
>gi|225619915|ref|YP_002721172.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1]
gi|225214734|gb|ACN83468.1| RNA polymerase sigma factor RpoD [Brachyspira hyodysenteriae WA1]
Length = 587
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 72/278 (25%), Positives = 130/278 (46%), Gaps = 47/278 (16%)
Query: 118 HQFLHWPDLWNLSPPMKRG--------EDPSVSLTMQSLSNDTEESVDAEPFDAVALARK 169
H+ L P ++N+S KR E V+L + LS D AL ++
Sbjct: 159 HEILEPPRIYNVSTQEKRKLERKYKNFEKEYVALAEKYLSLDKRIKKITTQKTIKALTKE 218
Query: 170 ALSASKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQ 229
L +LN E I+ L + L + Q + + E+ K+ +
Sbjct: 219 QEEVKDSIVKLLSKVRLNRMEIDRIA--EKLKFYLHRINQIEE--YFEKLKKR---YYKE 271
Query: 230 VTNHETYNSRKASVKKKLSEGFDRNDPLRL---FLWGPE-TRKLLTADEEFEL-IAQIQD 284
+++ E Y K++ G +++ +RL F PE ++T+ + ++ +A I D
Sbjct: 272 ISDFENYY-------KEIESG-NKDIYIRLVDEFNITPEAIEAVITSFHKAQVRMADIYD 323
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
+R++KE TL+EW + I S R + +++ ++ ANLRLV+ +
Sbjct: 324 EVRIDKE------------TLVEWVRKIDSSRRKIAQ-------AKDHIVKANLRLVIAI 364
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F+
Sbjct: 365 AKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFS 402
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 47/62 (75%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++R+ + ++L L +E+ ++R+RFG+ DG +L EVG +F +++ER+RQ+E++A+ R
Sbjct: 512 KILRKQIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAIRR 571
Query: 456 LK 457
L+
Sbjct: 572 LR 573
>gi|218197356|gb|EEC79783.1| hypothetical protein OsI_21197 [Oryza sativa Indica Group]
Length = 557
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 42/110 (38%), Positives = 59/110 (53%), Gaps = 1/110 (0%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
E+ L+ I++ LEK + L G E + WAKA G+ L+S L G RE+L
Sbjct: 265 EQSALLVTIKECANLEKIRENLLKD-GSEVSHASWAKAAGIDEALLRSRLQEGYCCRERL 323
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+ LV ++AK Y G G + DLLQ G MG++ EKF Q GC+F+
Sbjct: 324 LVTTEWLVKYIAKTYAGMGTAFEDLLQAGKMGVLNGAEKFDSQKGCKFST 373
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/183 (27%), Positives = 95/183 (51%), Gaps = 34/183 (18%)
Query: 276 FELIAQIQDLIRLEKEKSK-LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
+L A+++ +IR +E + ++ GR P E A IG+S
Sbjct: 394 IQLPARMEGIIRKVREARRAIRYNTGRNPPDAEIAALIGVSV------------------ 435
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQ 394
AN+RL A++ R +SL+ E +G + P +T +E PD ++
Sbjct: 436 -ANVRL----ARKCSRRVVSLY---TEIGVGQNAKFVEVTP-------DTSLEAPDEAMF 480
Query: 395 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 454
+ +R+ + ++L L P+E +++LR G+EDGK +SL ++G+I+ +SKE +R++E A+
Sbjct: 481 RMQLRERLLHVLDRLPPREGHVLKLRHGLEDGKCRSLEQIGSIYHVSKEWIRKIEKSAMS 540
Query: 455 RLK 457
+L+
Sbjct: 541 KLR 543
>gi|161899381|ref|XP_001712917.1| sigma 2 transcription factor [Bigelowiella natans]
gi|75756411|gb|ABA27305.1| sigma 2 transcription factor [Bigelowiella natans]
Length = 389
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 60/206 (29%), Positives = 99/206 (48%), Gaps = 30/206 (14%)
Query: 191 FTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKAS----VKKK 246
+ S+T Y ++ + ++SQP K +SK Y +RKAS K
Sbjct: 14 LNNTSMTLENNYNIKNINRYSQPL-------KNSISKA-------YENRKASSVNNYKNN 59
Query: 247 LSEGFDRNDPLRLFLWGPETRKLL----------TADEEFELIAQIQDLIRLEKEKSKLQ 296
L FD+ + F + E K T+ E ++ ++DL+R E KL+
Sbjct: 60 LDNLFDK--QIVDFSYIDELNKKKINLKHKNKNNTSTNESIIMEWVKDLLRWEDLFLKLE 117
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ G PT+ + K I ++K L G S+E LI +L+L++ +AK+Y G G+S
Sbjct: 118 NKLGFYPTIDFFTKGIIDLTSEIKERLAIGKISKEILIKRSLKLIISIAKRYNGCGLSFE 177
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFA 382
DL+ EG +GLMK + K+ G +F+
Sbjct: 178 DLIAEGILGLMKGIRKYDFSKGHKFS 203
Score = 53.1 bits (126), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 41/60 (68%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++Q + L L+ +E ++RLR+G++DG ++L E+G +++ER RQ+E +AL +L+
Sbjct: 317 LKQDLNKALLTLSDRESAVIRLRYGLDDGNERTLEEIGEYLNVTRERARQIEIKALKKLQ 376
>gi|224088962|ref|XP_002308586.1| predicted protein [Populus trichocarpa]
gi|222854562|gb|EEE92109.1| predicted protein [Populus trichocarpa]
Length = 559
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 69/113 (61%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSS 329
L A E ++ ++ LE+ ++ L+ + G+ +L WA+A GL + L+ +L G
Sbjct: 262 LIARNEAKMTRGVKVASDLERIRTTLEEETGQVVSLSCWAEATGLDKKVLQQQLQFGWYC 321
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
R++LI LV+++A+ Y+G GI++ DL+Q G++GL++ E+F P G RF+
Sbjct: 322 RDELIKNTHSLVLYIARNYRGMGIAMEDLIQAGNLGLLQGAERFDPTRGYRFS 374
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 33/77 (42%), Positives = 57/77 (74%), Gaps = 7/77 (9%)
Query: 388 IPDISVQ---KQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
IPD+S+Q + +MRQH+R +LL L+ +E+ ++ LR+G +D +PKSL+E+G +F +
Sbjct: 469 IPDMSIQNPEEAVMRQHMREEIYDLLRGLDSREKQVMVLRYGFKDNQPKSLAEIGRLFRV 528
Query: 441 SKERVRQLESRALYRLK 457
SKERVR++E + + +L+
Sbjct: 529 SKERVRKIEKKIMIKLR 545
>gi|441513649|ref|ZP_20995477.1| putative RNA polymerase sigma factor [Gordonia amicalis NBRC
100051]
gi|441451595|dbj|GAC53438.1| putative RNA polymerase sigma factor [Gordonia amicalis NBRC
100051]
Length = 338
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/147 (33%), Positives = 79/147 (53%), Gaps = 13/147 (8%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
+R A ++ L D +R++L G LL A++E EL QI+ + L
Sbjct: 22 GTRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE---------AGLY 72
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ L + RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L
Sbjct: 73 AKH----VLATKKRLSATKKRDLATIVREGEAARSHLLEANLRLVVSLAKRYTGRGMPLL 128
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL++++EKF G +F+
Sbjct: 129 DLIQEGNLGLIRAMEKFDYAKGFKFST 155
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 49/66 (74%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ +R +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 260 AVIAGLLHSDIRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 319
Query: 452 ALYRLK 457
+ +L+
Sbjct: 320 VMGKLR 325
>gi|95930284|ref|ZP_01313022.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM
684]
gi|95133747|gb|EAT15408.1| RNA polymerase, sigma 28 subunit [Desulfuromonas acetoxidans DSM
684]
Length = 296
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 91/168 (54%), Gaps = 18/168 (10%)
Query: 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R L +++ +G+ +R K+I +NLRLVV +AK+Y RG+ DL++EG+MGL+K+VE+F+
Sbjct: 48 RALATKVEAGDEQARAKMIESNLRLVVKIAKRYMNRGLPFLDLIEEGNMGLIKAVERFQV 107
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--------HVR-NLLTLLNPKERCIVRLRFGIEDG 426
CRF+ S+++ L+ Q HV N+ +L + + +L +
Sbjct: 108 AKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDNVNRMLKATKEVLKKL-----NH 162
Query: 427 KPKSLSEVGNIFGLSKERVRQLES--RALYRLKQSLGGKASYGYADLL 472
+P S +++ G E VR+L+ + Y ++ LG +Y D L
Sbjct: 163 EP-SEAQIAEAMGAPVEEVRRLQQLVKKTYSIEHPLGDNDNYSLMDTL 209
Score = 52.8 bits (125), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 44/63 (69%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 461
V L+ L ER I+ LRFG+ D +P++L +G +G+++ER+RQ+E+++L +L++ +
Sbjct: 230 VNKWLSSLKENERDILMLRFGLNDCEPETLDTIGKRYGVTRERIRQIEAKSLDKLRRMMR 289
Query: 462 GKA 464
+A
Sbjct: 290 EEA 292
>gi|229491301|ref|ZP_04385127.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121]
gi|453070914|ref|ZP_21974141.1| RNA polymerase sigma factor SigB [Rhodococcus qingshengii BKS
20-40]
gi|226185408|dbj|BAH33512.1| RNA polymerase sigma factor SigB [Rhodococcus erythropolis PR4]
gi|229321840|gb|EEN87635.1| RNA polymerase sigma factor RpoD [Rhodococcus erythropolis SK121]
gi|452759997|gb|EME18340.1| RNA polymerase sigma factor SigB [Rhodococcus qingshengii BKS
20-40]
Length = 323
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 71/129 (55%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I E S + AK
Sbjct: 25 DLVRVYLNGIGRTALLTAADEVELAKRI--------EAGLYASHVLATGKRLTVAKK--- 73
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL + + G S+R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 74 --RDLATIVREGQSARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 131
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 132 YAKGFKFST 140
Score = 68.2 bits (165), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAGLLHSDVRSVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304
Query: 452 ALYRLK 457
+ +L+
Sbjct: 305 VMGKLR 310
>gi|375101493|ref|ZP_09747756.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
gi|374662225|gb|EHR62103.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
cyanea NA-134]
Length = 474
Score = 76.6 bits (187), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRL-EKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ + +R+ E+E KL +Q
Sbjct: 172 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERLRVAEEEGEKLSTQM-------- 223
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 224 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 275
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 276 RAVEKFDYTKGFKFST 291
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 318 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 359
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 360 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 401
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 402 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 461
>gi|219849486|ref|YP_002463919.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus
aggregans DSM 9485]
gi|219543745|gb|ACL25483.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus
aggregans DSM 9485]
Length = 345
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 37/68 (54%), Positives = 49/68 (72%), Gaps = 1/68 (1%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
C LK+ + G +R LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++VEKF
Sbjct: 96 CELLKA-VQEGEEARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDH 154
Query: 376 QAGCRFAN 383
G RF+
Sbjct: 155 HKGNRFST 162
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/90 (37%), Positives = 56/90 (62%), Gaps = 4/90 (4%)
Query: 384 TGVEIP---DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
T E+P +I+ QK L+ + + L L+ +ER I+ LR+G+ DG+ ++L EVG + G+
Sbjct: 257 TDEELPAPGEIAAQK-LLHRDLCAALNQLSDRERRIIDLRYGLLDGRRRTLEEVGRVLGM 315
Query: 441 SKERVRQLESRALYRLKQSLGGKASYGYAD 470
++ER RQ+E+ AL RL+ G+ Y D
Sbjct: 316 TRERARQIEAEALRRLRSPEIGQHLRDYLD 345
>gi|413946740|gb|AFW79389.1| sigma factor protein [Zea mays]
Length = 568
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 88/309 (28%), Positives = 144/309 (46%), Gaps = 59/309 (19%)
Query: 95 ETEAFFVEEKNSG-DLDQLVQDLEHQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTE 153
ETE++ EE +S D D DL ++ L M+ E+ SL + L D
Sbjct: 116 ETESWMDEETSSWMDRDLTDSDLRYRLL-----------MQNLEELETSLVGKDLEMDIL 164
Query: 154 ESVDA-EPFDA-VALARKALSASKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFS 211
E + A F+A VA AL + SL ++P+ E T PL+ ++ S
Sbjct: 165 EQLGALGSFNASVARGVSALHGRPDG-SLLDDPE---PETT----------PLDAGQEDS 210
Query: 212 QPRFLER-RSKKRKVSKPQVTNHETYN--------------SRKASVKKKLSEGFDRNDP 256
Q + +S++RK+ + + ++ E + SRKAS + +SE
Sbjct: 211 QVVVVRSGKSQERKLRRMRASSDEKGSRTSVKVNPPRRPKKSRKASSSQFISE------- 263
Query: 257 LRLFLWG--PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
W P R+++ E+ L++ I++ LEK + K+ + G+E + WA+A G+
Sbjct: 264 -----WKSHPGQRRIIVR-EQSALLSTIKECAGLEKIREKMVKE-GQEVSYHRWAEAAGV 316
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+L S L +G R++L+ LV +A+ Y G G +L DLLQ G MG++ EKF
Sbjct: 317 DEAELVSRLQAGYCCRDRLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFD 376
Query: 375 PQAGCRFAN 383
+ GCRF+
Sbjct: 377 SRKGCRFST 385
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 48/77 (62%), Gaps = 7/77 (9%)
Query: 388 IPDISV---QKQLMRQHVRNLLTL----LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
IPD S + L R +R L L L +E ++RLR G+EDG+ +SL E+G I+G+
Sbjct: 479 IPDESASPDEAALFRGQLRERLLLVLGRLPAREGRVLRLRHGLEDGRCRSLEEIGGIYGV 538
Query: 441 SKERVRQLESRALYRLK 457
SKE +R++E A+ RL+
Sbjct: 539 SKEWIRKIEKSAMARLR 555
>gi|404421205|ref|ZP_11002928.1| RNA polymerase sigma factor [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
gi|403659218|gb|EJZ13874.1| RNA polymerase sigma factor [Mycobacterium fortuitum subsp.
fortuitum DSM 46621]
Length = 481
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 73/136 (53%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + ++ KL +Q R+ I
Sbjct: 179 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKMAEFAEKGEKLTTQVRRDYQWI- 237
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 238 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 282
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 283 RAVEKFDYTKGYKFST 298
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 403 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 462
Query: 452 ALYRLK 457
+ +L+
Sbjct: 463 TMSKLR 468
>gi|297622151|ref|YP_003710288.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044]
gi|297377452|gb|ADI39282.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila WSU 86-1044]
gi|337292552|emb|CCB90569.1| RNA polymerase sigma factor rpoD [Waddlia chondrophila 2032/99]
Length = 555
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 50/164 (30%), Positives = 89/164 (54%), Gaps = 9/164 (5%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R L+ + ++ +++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+
Sbjct: 300 VRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEY 359
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVRLRFGIEDGKPKS 430
+ G +F+ +V + + Q +R +++ +N R +L +E G+ +
Sbjct: 360 RRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLM--METGREPT 417
Query: 431 LSEVGNIFGLSKERVRQLESRALY--RLKQSLGGKASYGYADLL 472
E+ N GLS ER+R++ A + L+ +G + D L
Sbjct: 418 PEELANELGLSAERIREIYKIAQHPISLQAEVGDGGESQFGDFL 461
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 55/195 (28%), Positives = 91/195 (46%), Gaps = 36/195 (18%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
+I I ++R K KL + GREPT E A +GLS
Sbjct: 394 MIETINKVLRGAK---KLMMETGREPTPEELANELGLSA-------------------ER 431
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+R + +A+ ISL + +G + Q G +TG + P + +
Sbjct: 432 IREIYKIAQH----PISLQAEVGDGG----------ESQFGDFLEDTGADSPAEATGYSI 477
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ + +L L +ER ++ RFG+ DGKPK+L EVG F +++ER+RQ+E++AL +++
Sbjct: 478 LKDKMNEVLLTLTDRERKVLIQRFGLNDGKPKTLEEVGVEFNVTRERIRQIEAKALRKMR 537
Query: 458 QSLGGKASYGYADLL 472
K + DLL
Sbjct: 538 HPTRSKQLKAFLDLL 552
>gi|238063483|ref|ZP_04608192.1| sigma-70 region 2 domain-containing protein [Micromonospora sp.
ATCC 39149]
gi|237885294|gb|EEP74122.1| sigma-70 region 2 domain-containing protein [Micromonospora sp.
ATCC 39149]
Length = 334
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 44/130 (33%), Positives = 72/130 (55%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L G KLLTA++E EL ++++ E L
Sbjct: 34 TDLVRAYLNGIGRTKLLTAEQEVEL-------------AKRIEAGLFAEEKLATCTPVST 80
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ DL+ + G ++++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 81 VLRADLEIIVAEGRTAKDHLLEANLRLVVSIAKRYTGRGMAFLDLIQEGNLGLIRAVEKF 140
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 141 DYTKGFKFST 150
Score = 66.6 bits (161), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/60 (46%), Positives = 45/60 (75%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R VR +L L+ +E+ ++RLRFG++DG+ ++L EVG FGLS+ER+RQ+E L +L+
Sbjct: 262 LRNEVRIVLATLSQREQAVIRLRFGLDDGRQRTLDEVGREFGLSRERIRQIEKVTLLKLR 321
>gi|415904113|ref|ZP_11552297.1| RNA polymerase sigma factor [Herbaspirillum frisingense GSF30]
gi|407763608|gb|EKF72248.1| RNA polymerase sigma factor [Herbaspirillum frisingense GSF30]
Length = 332
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 75/125 (60%), Gaps = 5/125 (4%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+R+K+I NLRLVV +AK Y RG++L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 92 ARQKMIEHNLRLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWW 151
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKE-RCIVRLRFGIE----DGKPKSLSEVGNIFGLSKE 443
S+++ +M Q L + +E I+R ++ +E DG+ ++ ++ G E
Sbjct: 152 IRQSIERAIMNQARTVRLPVHMVRELNQILRAKYHLEAQHRDGRDAGAEDIAHLVGRPVE 211
Query: 444 RVRQL 448
V+ +
Sbjct: 212 EVQDV 216
Score = 52.0 bits (123), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 45/78 (57%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD + Q +R L L+ K+R +V RFG+++ P +L ++ G+++ERVR
Sbjct: 248 EHPDTRAESQETALLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQLAGEMGITRERVR 307
Query: 447 QLESRALYRLKQSLGGKA 464
Q++ AL +LK+ L +
Sbjct: 308 QVQQEALVKLKRLLTSRG 325
>gi|148823899|ref|YP_001288653.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis F11]
gi|253798208|ref|YP_003031209.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN
1435]
gi|308232219|ref|ZP_07415326.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu001]
gi|308369834|ref|ZP_07419229.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu002]
gi|308371106|ref|ZP_07423839.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu003]
gi|308372374|ref|ZP_07428435.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu004]
gi|308373485|ref|ZP_07432499.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu005]
gi|308374669|ref|ZP_07436917.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu006]
gi|308375503|ref|ZP_07444157.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu007]
gi|308377104|ref|ZP_07441142.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu008]
gi|308378072|ref|ZP_07481430.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu009]
gi|308379289|ref|ZP_07485765.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu010]
gi|308380449|ref|ZP_07489983.2| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu011]
gi|385991992|ref|YP_005910290.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5180]
gi|148722426|gb|ABR07051.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis F11]
gi|253319711|gb|ACT24314.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
1435]
gi|308214646|gb|EFO74045.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu001]
gi|308326293|gb|EFP15144.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu002]
gi|308329821|gb|EFP18672.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu003]
gi|308333464|gb|EFP22315.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu004]
gi|308337459|gb|EFP26310.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu005]
gi|308341132|gb|EFP29983.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu006]
gi|308346083|gb|EFP34934.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu007]
gi|308348958|gb|EFP37809.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu008]
gi|308353656|gb|EFP42507.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu009]
gi|308357503|gb|EFP46354.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu010]
gi|308361457|gb|EFP50308.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu011]
gi|339299185|gb|AEJ51295.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5180]
Length = 345
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 74/130 (56%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 47 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 92
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 93 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 152
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 153 DYTKGFKFST 162
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 267 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 326
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 327 VMSKLRHG 334
>gi|302389497|ref|YP_003825318.1| RNA polymerase sigma-70 subunit RpoD [Thermosediminibacter oceani
DSM 16646]
gi|302200125|gb|ADL07695.1| RNA polymerase, sigma 70 subunit, RpoD [Thermosediminibacter oceani
DSM 16646]
Length = 367
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 29/62 (46%), Positives = 52/62 (83%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+R+ + ++L L P+E ++RLRFG++DGKP++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 293 RLLREQLEDVLETLTPREEKVLRLRFGLDDGKPRTLEEVGQVFGVTRERIRQIEAKALRK 352
Query: 456 LK 457
L+
Sbjct: 353 LR 354
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 42/137 (30%), Positives = 64/137 (46%), Gaps = 40/137 (29%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLT +EE EL +I+
Sbjct: 88 IPEGVAIDDPVRMYLKEIGKIPLLTPEEEIELAKRIE----------------------- 124
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 125 -----------------KGDKEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 167
Query: 367 MKSVEKFKPQAGCRFAN 383
+K+VEKF + G +F+
Sbjct: 168 IKAVEKFDYRKGYKFST 184
>gi|159896899|ref|YP_001543146.1| RpoD family RNA polymerase sigma factor [Herpetosiphon aurantiacus
DSM 785]
gi|159889938|gb|ABX03018.1| RNA polymerase, sigma 70 subunit, RpoD family [Herpetosiphon
aurantiacus DSM 785]
Length = 391
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 50/129 (38%), Positives = 72/129 (55%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D ++++L +LLTA+EE L QI+ K + +LQ++ W + L
Sbjct: 93 DSVQMYLREIGEVELLTAEEEITLAKQIETG---RKAEHQLQTE-----QYATWDERTAL 144
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R + GN R KL ANLRLVV VAK+Y G +S DL+QEG++GLM++VEKF
Sbjct: 145 ERR-----VDFGNEGRRKLTQANLRLVVSVAKKYIGNHMSFMDLIQEGNIGLMRAVEKFD 199
Query: 375 PQAGCRFAN 383
+ G RF+
Sbjct: 200 YRKGNRFST 208
Score = 63.5 bits (153), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 85/180 (47%), Gaps = 39/180 (21%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLR---LVVHVAKQYQG 350
+L+ RE T E A A+G+S R +K +++NA+++ L + K+ QG
Sbjct: 248 QLEQALQREATPDELADALGVSLRKVK-----------RMLNASVQPVSLEQPIGKEGQG 296
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLN 410
R G A+ E P + +++ + + L+ L
Sbjct: 297 R-------------------------VGEFLADDTDEAPLEQATRMMLQDELADALSQLP 331
Query: 411 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 470
+ER I+ LR+G+ DGK ++L EVG FG+++ER RQ+E+ A+ L+Q G+ Y D
Sbjct: 332 DRERQILLLRYGLADGKRRTLEEVGAEFGITRERTRQIEAEAMRHLRQPNVGQHLRAYLD 391
>gi|440700623|ref|ZP_20882862.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
gi|440276773|gb|ELP64993.1| RNA polymerase sigma factor RpoD [Streptomyces turgidiscabies Car8]
Length = 421
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 348 LLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 407
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 408 RDHAFADQLRGYLD 421
Score = 73.2 bits (178), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 44/115 (38%), Positives = 68/115 (59%), Gaps = 13/115 (11%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE +L +++ + +EK +L S + L DL + G
Sbjct: 137 LLTAAEEVDLARRVEAGL-FAEEKLRLASDLDSQLAL------------DLDRLVVLGRM 183
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F+
Sbjct: 184 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFST 238
>gi|347951560|gb|AEP32916.1| RpoS [Dickeya solani]
Length = 280
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 37/104 (35%), Positives = 67/104 (64%), Gaps = 5/104 (4%)
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ G P L+ A+ + + R L+ ++ SSR ++I +NLRLVV +A++Y RG++L
Sbjct: 54 GEIGYSP-LLTAAEEVYFARRALRGDV----SSRRRMIESNLRLVVKIARRYNNRGLALL 108
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
DL++EG++GL+++VEKF P+ G RF+ ++++ +M Q
Sbjct: 109 DLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRXTIERAIMNQ 152
>gi|162463525|ref|NP_001105185.1| sigma factor protein [Zea mays]
gi|20159761|gb|AAM12034.1| sigma factor protein [Zea mays]
Length = 568
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 69/120 (57%), Gaps = 2/120 (1%)
Query: 264 PETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL 323
P R+++ E+ L++ I++ LEK + K+ + G+E + WA+A G+ +L S L
Sbjct: 268 PGQRRIIVR-EQSALLSTIKECAGLEKIREKMVKE-GQEVSYHRWAEAAGVDEAELVSRL 325
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+G R++L+ LV +A+ Y G G +L DLLQ G MG++ EKF + GCRF+
Sbjct: 326 QAGYCCRDRLLVTTEWLVRCIARTYTGMGTALDDLLQAGKMGVLDGAEKFDSRKGCRFST 385
Score = 56.6 bits (135), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/77 (41%), Positives = 48/77 (62%), Gaps = 7/77 (9%)
Query: 388 IPDISV---QKQLMRQHVRNLLTL----LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 440
IPD S + L R +R L L L +E ++RLR G+EDG+ +SL E+G I+G+
Sbjct: 479 IPDESASPDEAALFRGQLRERLLLVLGRLPAREGRVLRLRHGLEDGRCRSLEEIGGIYGV 538
Query: 441 SKERVRQLESRALYRLK 457
SKE +R++E A+ RL+
Sbjct: 539 SKEWIRKIEKSAMARLR 555
>gi|433647324|ref|YP_007292326.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
smegmatis JS623]
gi|433297101|gb|AGB22921.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
smegmatis JS623]
Length = 319
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L + L+E K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAAH-----LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 70.9 bits (172), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|118469122|ref|YP_887090.1| RNA polymerase sigma factor [Mycobacterium smegmatis str. MC2 155]
gi|399987104|ref|YP_006567453.1| RNA polymerase sigma factor rpoD [Mycobacterium smegmatis str. MC2
155]
gi|555680|gb|AAA85642.1| sigma factor MysA [Mycobacterium smegmatis]
gi|118170409|gb|ABK71305.1| sigma factor MysA [Mycobacterium smegmatis str. MC2 155]
gi|399231665|gb|AFP39158.1| RNA polymerase sigma factor rpoD [Mycobacterium smegmatis str. MC2
155]
Length = 466
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q L L ++ KL Q R+ ++
Sbjct: 164 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQKLAELAEKGEKLPVQQRRD---MQ 220
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 221 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 267
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 268 RAVEKFDYTKGYKFST 283
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 49/61 (80%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 393 LLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 452
Query: 457 K 457
+
Sbjct: 453 R 453
>gi|355576273|ref|ZP_09045605.1| hypothetical protein HMPREF1008_01582 [Olsenella sp. oral taxon 809
str. F0356]
gi|354816925|gb|EHF01437.1| hypothetical protein HMPREF1008_01582 [Olsenella sp. oral taxon 809
str. F0356]
Length = 461
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 104/199 (52%), Gaps = 12/199 (6%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE L +I+ + KL++ E IE +A
Sbjct: 157 GDPVRMYLKEIGKVDLLTASEEVNLAMKIEAGT---EASQKLEAADNGE---IELTRA-- 208
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G +++ LI+ANLRL V +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 209 -EMRRLMRIEQVGLEAKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 267
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-GKPKS 430
G +F+ ++ + + Q +R + ++ + + R ++D G+ +
Sbjct: 268 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 327
Query: 431 LSEVGNIFGLSKERVRQLE 449
E+G G++ +RVR+++
Sbjct: 328 PEEIGEEMGITADRVREIQ 346
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 52/82 (63%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G ++ P + ++R+ + +L L +ER +++ RFG+EDG P++L EVG
Sbjct: 366 QLGDFIEDSSAVAPPEAASDSMLREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVG 425
Query: 436 NIFGLSKERVRQLESRALYRLK 457
FG+++ER+RQ+ES+ L +L+
Sbjct: 426 REFGVTRERIRQIESKTLAKLR 447
>gi|147865632|emb|CAN83254.1| hypothetical protein VITISV_036980 [Vitis vinifera]
Length = 611
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 39/139 (28%), Positives = 80/139 (57%), Gaps = 1/139 (0%)
Query: 267 RKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
++L+ A E E+ ++ + LE+ ++ L+ + G +L WA+A G+ + L+ +L G
Sbjct: 311 KRLMNAKNEAEMSKGVKLVANLERIRATLEEEIGHVASLSNWAEAAGVDKKVLQQQLQFG 370
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV 386
R++L+ + LV+++A+ Y+G G++ D+LQ G++G+++ E+F G RF+ T V
Sbjct: 371 WYCRDELLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFS-TYV 429
Query: 387 EIPDISVQKQLMRQHVRNL 405
+ L+ +H R +
Sbjct: 430 QYWIRKSMSTLVARHARGV 448
Score = 61.6 bits (148), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 82/179 (45%), Gaps = 39/179 (21%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I QIQ K + L GR P E AK GLS ++S +GN L
Sbjct: 458 IGQIQ------KARKALYKSHGRYPDDNEIAKFTGLSLAKIRS---AGNC---------L 499
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+V + +Q ++ +F P +T ++ P+ +Q
Sbjct: 500 RVVGSTDQSFQD--------------CWGATILEFTP-------DTSIKSPEEGFMQQCK 538
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R+ + NLL L+P+ER I+ LR+G + + KSL E+G F +SKE +R+LE AL L+
Sbjct: 539 RKDIHNLLKGLDPRERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKTALANLR 597
>gi|399018036|ref|ZP_10720222.1| RNA polymerase sigma factor RpoS [Herbaspirillum sp. CF444]
gi|398102001|gb|EJL92193.1| RNA polymerase sigma factor RpoS [Herbaspirillum sp. CF444]
Length = 341
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 76/126 (60%), Gaps = 5/126 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
+SR+K+I NLRLVV +AK Y RG++L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 100 ASRQKMIEHNLRLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATW 159
Query: 388 IPDISVQKQLMRQHVRNLLTLLNPKE-RCIVRLRFGIE----DGKPKSLSEVGNIFGLSK 442
S+++ +M Q L + +E I+R ++ +E DG+ + ++ ++
Sbjct: 160 WIRQSIERAIMNQARTVRLPVHMVRELNQILRAKYHLEAQQHDGRDATAEDIAHLVDRPV 219
Query: 443 ERVRQL 448
E V+ +
Sbjct: 220 EDVQDV 225
Score = 55.1 bits (131), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 70/146 (47%), Gaps = 20/146 (13%)
Query: 334 INANLRLVVHV-AKQYQGRGISLHDL----------------LQEGSMGLMKSVEKFKPQ 376
+N LR H+ A+Q+ GR + D+ L E + L ++ PQ
Sbjct: 186 LNQILRAKYHLEAQQHDGRDATAEDIAHLVDRPVEDVQDVLTLSEHAASLDTPLDN-DPQ 244
Query: 377 AGC--RFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 434
A + E PD + M +R+ L L K+R ++ RFG+++ P +L ++
Sbjct: 245 ASLIDLLPGSNDENPDTQAESHEMSILIRDWLKNLPDKQRIVITRRFGLDNDDPSTLEQL 304
Query: 435 GNIFGLSKERVRQLESRALYRLKQSL 460
G+++ERVRQ++ AL +LK++L
Sbjct: 305 ATEMGITRERVRQVQQEALIKLKRTL 330
>gi|406917815|gb|EKD56514.1| hypothetical protein ACD_58C00166G0002 [uncultured bacterium]
Length = 369
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 34/71 (47%), Positives = 53/71 (74%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD S QL+R HV L L P+E+ I+++RFG+EDG+ +L EVG FG+++ER+RQ+
Sbjct: 288 PDESAIYQLLRGHVTEFLQTLQPREQKILKMRFGLEDGRTHTLEEVGKEFGVTRERIRQI 347
Query: 449 ESRALYRLKQS 459
E+++L RLK++
Sbjct: 348 EAKSLQRLKKN 358
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/55 (54%), Positives = 43/55 (78%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+++KL ANLRLVV +AK+Y GRG+SL DL+QEG+ GL+++VEKF G +F+
Sbjct: 132 AKKKLAEANLRLVVSIAKKYIGRGLSLLDLIQEGNSGLLRAVEKFNFHKGYKFST 186
>gi|373118497|ref|ZP_09532625.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium
7_1_58FAA]
gi|371666996|gb|EHO32129.1| RNA polymerase sigma factor RpoD [Lachnospiraceae bacterium
7_1_58FAA]
Length = 448
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/144 (34%), Positives = 79/144 (54%), Gaps = 18/144 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L + F +DP+R++L LLT DEE +L QD+ + K +++ +
Sbjct: 133 LVDSFGIDDPVRMYLKEIGKVNLLTPDEEVQLA---QDMGAGDAAKEQMEE--------L 181
Query: 307 EWAKAIGLSCRD-------LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
E A+ G L+ + G +++++L ANLRLVV +AK+Y GRG+ DL+
Sbjct: 182 EQARKNGEEVSITEEEEKELRRLVKRGEAAKQRLAEANLRLVVSIAKRYVGRGMLFLDLI 241
Query: 360 QEGSMGLMKSVEKFKPQAGCRFAN 383
QEG++GL+K+VEKF G +F+
Sbjct: 242 QEGNLGLIKAVEKFDYTKGYKFST 265
Score = 65.9 bits (159), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/61 (42%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++ER+RQ+E++AL +L
Sbjct: 375 LLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQIEAKALRKL 434
Query: 457 K 457
+
Sbjct: 435 R 435
>gi|225429414|ref|XP_002275831.1| PREDICTED: RNA polymerase sigma factor rpoD [Vitis vinifera]
gi|296081598|emb|CBI20603.3| unnamed protein product [Vitis vinifera]
Length = 561
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 39/139 (28%), Positives = 80/139 (57%), Gaps = 1/139 (0%)
Query: 267 RKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSG 326
++L+ A E E+ ++ + LE+ ++ L+ + G +L WA+A G+ + L+ +L G
Sbjct: 261 KRLMNAKNEAEMSKGVKLVANLERIRATLEEEIGHVASLSNWAEAAGVDKKVLQQQLQFG 320
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGV 386
R++L+ + LV+++A+ Y+G G++ D+LQ G++G+++ E+F G RF+ T V
Sbjct: 321 WYCRDELLRSTHSLVLYIARNYRGMGVAFEDILQAGNLGVLQGAERFDHTKGYRFS-TYV 379
Query: 387 EIPDISVQKQLMRQHVRNL 405
+ L+ +H R +
Sbjct: 380 QYWIRKSMSTLVARHARGV 398
Score = 61.6 bits (148), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 82/179 (45%), Gaps = 39/179 (21%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I QIQ K + L GR P E AK GLS ++S +GN L
Sbjct: 408 IGQIQ------KARKALYKSHGRYPDDNEIAKFTGLSLAKIRS---AGNC---------L 449
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R+V + +Q ++ +F P +T ++ P+ +Q
Sbjct: 450 RVVGSTDQSFQD--------------CWGATILEFTP-------DTSIKSPEEGFMQQCK 488
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
R+ + NLL L+P+ER I+ LR+G + + KSL E+G F +SKE +R+LE AL L+
Sbjct: 489 RKDIHNLLKGLDPRERQILVLRYGFGEQQRKSLEEIGRRFNVSKEWIRKLEKTALANLR 547
>gi|300871651|ref|YP_003786524.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli
95/1000]
gi|300689352|gb|ADK32023.1| RNA polymerase sigma factor rpoD (Sigma-70) [Brachyspira pilosicoli
95/1000]
Length = 568
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/282 (27%), Positives = 134/282 (47%), Gaps = 55/282 (19%)
Query: 118 HQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVD-AEPFDAV------ALARKA 170
H+ L P ++N+S KR + + N +E VD AE + A+ A +K
Sbjct: 140 HEILEPPRIYNVSTQEKRKLE-------RKYKNFEKEYVDLAEKYLALDKRIKKATTQKT 192
Query: 171 L-SASKEAASLAEN-------PKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKK 222
+ + + E + EN KLN E I+ L + L + Q + + E+ K+
Sbjct: 193 IKNLTNEQNEIKENIVKLLSKVKLNRMEIDRIA--EKLKFYLHRINQIEE--YFEKLKKR 248
Query: 223 RKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRK-LLTADEEFEL-IA 280
++++ E Y + S KK+ + F PE K +LT+ ++ +A
Sbjct: 249 ---YGKEISDFENYYNEIESGNKKIYTRL-----VDEFNITPEAIKAVLTSFHNSQVRMA 300
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I D +R +KE TL+EW + I S R + +++ ++ ANLRL
Sbjct: 301 DIYDEVRTDKE------------TLVEWVRKIDSSRRKIAQ-------AKDHIVKANLRL 341
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
V+ +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F+
Sbjct: 342 VISIAKKYTNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFS 383
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 50/64 (78%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++R+H+ +LL L +E+ ++R+R+G++DG +L EVG +F +++ER+RQ+E++A+ R
Sbjct: 493 KILRKHIDSLLDNLPEREQKVIRMRYGLDDGYNHTLEEVGYVFKVTRERIRQIEAKAIRR 552
Query: 456 LKQS 459
L+ +
Sbjct: 553 LRAT 556
>gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12]
Length = 409
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 80/146 (54%), Gaps = 12/146 (8%)
Query: 238 SRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
+R+ K++L+ ++P+R++L LLTA+E+ +L +I+
Sbjct: 93 ARRRREKEELALKAPTSEPVRMYLKEIGKVPLLTAEEQVDLAKRIE------------AG 140
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
F + + K RDL++ G ++ KL+ ANLRLVV +AK+Y GRG+ D
Sbjct: 141 LFASDKLAVATKKTSPQMRRDLEAIERDGQIAKRKLVEANLRLVVSIAKRYVGRGMLFLD 200
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFAN 383
L+QEG++GL+++VEKF G +F+
Sbjct: 201 LIQEGNLGLIRAVEKFDYTKGYKFST 226
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 48/61 (78%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 336 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 395
Query: 457 K 457
+
Sbjct: 396 R 396
>gi|451981289|ref|ZP_21929652.1| RNA polymerase sigma factor [Nitrospina gracilis 3/211]
gi|451761473|emb|CCQ90906.1| RNA polymerase sigma factor [Nitrospina gracilis 3/211]
Length = 299
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 57/192 (29%), Positives = 89/192 (46%), Gaps = 34/192 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
I Q L ++E+E KL + REPT +E A+ +G D++S
Sbjct: 142 IKQAGKLYKIEREYKKLTNDLEREPTTLEVAEDLGYKVEDIES----------------- 184
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
++ + Y +SL L+E + N D + + +
Sbjct: 185 --IMRAYRTY----LSLDTPLKENETTPYLDL----------LENPNYIPYDDQIMRDTL 228
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
R+ + +LL L+P+E I+R+RFG DG PK+L E+G GLS+ERVRQ+E RA RLK
Sbjct: 229 RKKIDDLLHHLSPREEKIIRMRFGF-DGDPKTLEEIGQAMGLSRERVRQIEKRAKMRLKV 287
Query: 459 SLGGKASYGYAD 470
G++ + D
Sbjct: 288 RSAGESLQDHLD 299
Score = 52.4 bits (124), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 47/70 (67%), Gaps = 1/70 (1%)
Query: 318 DLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
+L ++ +G++ + +L+ NL+ VV VA +Y+G G+SL DL++EG++GL+++ ++F +
Sbjct: 51 ELSRQIKAGDAQAMHELVRRNLKYVVTVANKYRGCGLSLQDLIEEGNIGLIQAAKRFDGE 110
Query: 377 AGCRFANTGV 386
+F V
Sbjct: 111 RHVKFITYAV 120
>gi|15807631|ref|NP_294640.1| RNA polymerase sigma-A factor [Deinococcus radiodurans R1]
Length = 360
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 46/130 (35%), Positives = 75/130 (57%), Gaps = 13/130 (10%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R +L LLT +EE L +I+ E + + Q + +L + ++
Sbjct: 58 NDPVRQYLHEIGRVSLLTLEEEIALARRIE-------EGEEARKQLEEDESLDDRSR--- 107
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L ++ G ++R+ LI ANLRLVV +AK+Y GRG+ DL+QEG+ GL+++VEKF
Sbjct: 108 ---RRLMRQMEDGAAARQGLIEANLRLVVSIAKKYTGRGLGFLDLIQEGNQGLIRAVEKF 164
Query: 374 KPQAGCRFAN 383
+ + +F+
Sbjct: 165 EYRRRYKFST 174
Score = 50.4 bits (119), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 43/69 (62%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + K L+ + + L L +E +++ R G+ DG+ +L EVG F +++ER+RQ+
Sbjct: 278 PVDNAAKTLLSEELEKALGKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQI 337
Query: 449 ESRALYRLK 457
E++AL +LK
Sbjct: 338 ENKALRKLK 346
>gi|375094960|ref|ZP_09741225.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
gi|374655693|gb|EHR50526.1| RNA polymerase sigma factor, sigma-70 family [Saccharomonospora
marina XMU15]
Length = 470
Score = 76.6 bits (187), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRL-EKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ + +R+ E+E KL +Q
Sbjct: 168 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERLRVAEEEGEKLSTQM-------- 219
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 220 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 271
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 272 RAVEKFDYTKGFKFST 287
Score = 68.2 bits (165), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 314 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 355
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 356 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 397
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 398 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 457
>gi|167970067|ref|ZP_02552344.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra]
gi|254551766|ref|ZP_05142213.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
'98-R604 INH-RIF-EM']
gi|289746512|ref|ZP_06505890.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
02_1987]
gi|294994199|ref|ZP_06799890.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis 210]
gi|297635318|ref|ZP_06953098.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN
4207]
gi|297732314|ref|ZP_06961432.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN
R506]
gi|375295476|ref|YP_005099743.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
4207]
gi|385995613|ref|YP_005913911.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5079]
gi|392431684|ref|YP_006472728.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
605]
gi|422813758|ref|ZP_16862130.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
CDC1551A]
gi|424948366|ref|ZP_18364062.1| RNA polymerase sigma factor [Mycobacterium tuberculosis NCGM2209]
gi|289687040|gb|EFD54528.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
02_1987]
gi|323718704|gb|EGB27866.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
CDC1551A]
gi|328457981|gb|AEB03404.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
4207]
gi|339295567|gb|AEJ47678.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CCDC5079]
gi|358232881|dbj|GAA46373.1| RNA polymerase sigma factor [Mycobacterium tuberculosis NCGM2209]
gi|392053093|gb|AFM48651.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis KZN
605]
Length = 333
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 74/130 (56%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 35 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 80
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 81 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 140
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 141 DYTKGFKFST 150
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 255 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 314
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 315 VMSKLRHG 322
>gi|86742187|ref|YP_482587.1| sigma 38 [Frankia sp. CcI3]
gi|86569049|gb|ABD12858.1| sigma 38 [Frankia sp. CcI3]
Length = 422
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 53/67 (79%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 173 RDLGLLVKDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 232
Query: 377 AGCRFAN 383
G +F+
Sbjct: 233 KGYKFST 239
Score = 67.0 bits (162), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/61 (47%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L L+P+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 350 MQDEIENVLGGLSPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 409
Query: 458 Q 458
+
Sbjct: 410 K 410
>gi|21466008|pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
gi|21466014|pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 52/148 (35%), Positives = 84/148 (56%), Gaps = 21/148 (14%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQD---LIRLEKEKSKLQSQFGREPTLIEWAK 310
+DP+R +L LLT +EE +L ++++ I+ E + L + RE + AK
Sbjct: 2 SDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIRE---VVRAK 58
Query: 311 AIGLS------------CRDLKSELH---SGNSSREKLINANLRLVVHVAKQYQGRGISL 355
+G + ++LK LH G ++R+ LI ANLRLVV +AK+Y GRG+S
Sbjct: 59 ILGTARVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSF 118
Query: 356 HDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG+ GL+++VEKF+ + +F+
Sbjct: 119 LDLIQEGNQGLIRAVEKFEYKRRFKFST 146
Score = 54.3 bits (129), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 47/69 (68%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P + + L+ + + L+ L+ +E +++LR G+ DG+ +L EVG FG+++ER+RQ+
Sbjct: 250 PVEAAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQI 309
Query: 449 ESRALYRLK 457
E++AL +LK
Sbjct: 310 ENKALRKLK 318
>gi|340794551|ref|YP_004760014.1| RNA polymerase sigma factor B [Corynebacterium variabile DSM 44702]
gi|340534461|gb|AEK36941.1| RNA polymerase sigma factor B [Corynebacterium variabile DSM 44702]
Length = 397
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 70/129 (54%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL ++++ E L K
Sbjct: 99 DLVRVYLNGIGKTALLTAADEVEL-------------SQRIEAGLYAEHLLETGEKLTRA 145
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 146 RKRDLKILAREGRAARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 205
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 206 YAKGFKFST 214
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 46/68 (67%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L VR +L L +E+ +++LR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 319 AVVASLRHSDVRAVLDTLEEREQDVIKLRYGLDDGMPRTLDQIGRSFGLSRERVRQIERE 378
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 379 VMAKLREG 386
>gi|148264661|ref|YP_001231367.1| RpoD family RNA polymerase sigma factor [Geobacter uraniireducens
Rf4]
gi|146398161|gb|ABQ26794.1| RNA polymerase, sigma 38 subunit, RpoS [Geobacter uraniireducens
Rf4]
Length = 336
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/147 (33%), Positives = 74/147 (50%), Gaps = 40/147 (27%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D ++L+L + KLLTADEE EL A+I
Sbjct: 60 DDAIKLYLREIQKTKLLTADEEKELAARID------------------------------ 89
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
K E ++R+K+I +NLRLVV +AK+Y RG+ DL++EG+MGL+K+VE+F
Sbjct: 90 ------KGE----KAARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERF 139
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ 400
K CRF+ S+++ L+ Q
Sbjct: 140 KLSKECRFSTYATWWIRQSIERALVNQ 166
Score = 52.4 bits (124), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 40/52 (76%)
Query: 409 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 460
L+ E+ I+ LRFG++D P++L +G FG+++ER+RQ+E+++L +L++ L
Sbjct: 271 LSDSEKRILTLRFGLDDKDPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKIL 322
>gi|440525542|emb|CCP50793.1| RNA polymerase sigma factor [Chlamydia trachomatis K/SotonK1]
gi|440533577|emb|CCP59087.1| RNA polymerase sigma factor [Chlamydia trachomatis Ia/SotonIa1]
gi|440534471|emb|CCP59981.1| RNA polymerase sigma factor [Chlamydia trachomatis Ia/SotonIa3]
Length = 569
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 294 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 349
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 350 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 409
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 410 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 460
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 460 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 519
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 520 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 554
>gi|344999511|ref|YP_004802365.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces sp.
SirexAA-E]
gi|344315137|gb|AEN09825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces sp.
SirexAA-E]
Length = 355
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 54/74 (72%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+ES+ L RL
Sbjct: 282 LLREHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLARL 341
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 342 RDHAFADQLRGYLD 355
Score = 71.2 bits (173), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 47/133 (35%), Positives = 73/133 (54%), Gaps = 3/133 (2%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
+DL + G + +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 105 AQDLGRLVVQGRMAERRLIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDY 164
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCI-VRLRFGIEDGKPKSLS 432
G +F+ ++ + L Q +R + ++ R + V+ R E G S
Sbjct: 165 TRGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAE 224
Query: 433 EVGNIFGLSKERV 445
EV L+ ERV
Sbjct: 225 EVAAQLDLTPERV 237
>gi|237804965|ref|YP_002889119.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT]
gi|231273265|emb|CAX10180.1| RNA polymerase sigma factor [Chlamydia trachomatis B/TZ1A828/OT]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 462
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|126434760|ref|YP_001070451.1| RNA polymerase sigma factor [Mycobacterium sp. JLS]
gi|126234560|gb|ABN97960.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp.
JLS]
Length = 480
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q L L ++ KL Q R+ ++
Sbjct: 178 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKLAELAEKGEKLPVQQRRD---MQ 234
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 235 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 281
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 282 RAVEKFDYTKGYKFST 297
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 49/61 (80%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 407 LLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 466
Query: 457 K 457
+
Sbjct: 467 R 467
>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 = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/147 (32%), Positives = 79/147 (53%), Gaps = 21/147 (14%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQ 296
A V++ +S G DP++ +L LL A++E +L +I+ + +L + K+
Sbjct: 150 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLYAEEKLAADDGKIT 208
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+ RE +W +H G ++ L+ ANLRLVV +AK+Y GRG+
Sbjct: 209 EKLNRE---YQWV-------------IHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFL 252
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG+MGL+++VEKF G +F+
Sbjct: 253 DLIQEGNMGLIRAVEKFDYTKGFKFST 279
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 67/118 (56%), Gaps = 11/118 (9%)
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ 400
VV V K Y ISLH L E + G ++ +P +V L+++
Sbjct: 344 VVEVQK-YGREPISLHTPLGEDG----------DSEFGDLIEDSEAVVPADAVSFTLLQE 392
Query: 401 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 393 QLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 450
>gi|343924623|ref|ZP_08764167.1| RNA polymerase sigma factor SigB [Gordonia alkanivorans NBRC 16433]
gi|404258486|ref|ZP_10961805.1| RNA polymerase sigma factor SigB [Gordonia namibiensis NBRC 108229]
gi|409390116|ref|ZP_11241887.1| RNA polymerase sigma factor SigB [Gordonia rubripertincta NBRC
101908]
gi|343765423|dbj|GAA11093.1| RNA polymerase sigma factor SigB [Gordonia alkanivorans NBRC 16433]
gi|403199943|dbj|GAB85121.1| RNA polymerase sigma factor SigB [Gordonia rubripertincta NBRC
101908]
gi|403403000|dbj|GAC00215.1| RNA polymerase sigma factor SigB [Gordonia namibiensis NBRC 108229]
Length = 338
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/147 (33%), Positives = 79/147 (53%), Gaps = 13/147 (8%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
+R A ++ L D +R++L G LL A++E EL QI+ + L
Sbjct: 22 GTRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE---------AGLY 72
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ L + RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L
Sbjct: 73 AKH----VLATKKRLSATKKRDLATIVREGEAARAHLLEANLRLVVSLAKRYTGRGMPLL 128
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFAN 383
DL+QEG++GL++++EKF G +F+
Sbjct: 129 DLIQEGNLGLIRAMEKFDYAKGFKFST 155
Score = 66.6 bits (161), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 49/66 (74%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ +R +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 260 AVIAGLLHSDIRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 319
Query: 452 ALYRLK 457
+ +L+
Sbjct: 320 VMGKLR 325
>gi|449064777|ref|YP_007431860.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Korea 1168P]
gi|449033285|gb|AGE68712.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Korea 1168P]
Length = 338
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 74/130 (56%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 40 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 85
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 86 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 145
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 146 DYTKGFKFST 155
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 260 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 319
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 320 VMSKLRHG 327
>gi|15609847|ref|NP_217226.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Rv]
gi|15842248|ref|NP_337285.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CDC1551]
gi|31793882|ref|NP_856375.1| RNA polymerase sigma factor SigB [Mycobacterium bovis AF2122/97]
gi|121638585|ref|YP_978809.1| RNA polymerase sigma factor SigB [Mycobacterium bovis BCG str.
Pasteur 1173P2]
gi|148662551|ref|YP_001284074.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Ra]
gi|224991077|ref|YP_002645766.1| RNA polymerase sigma factor SigB [Mycobacterium bovis BCG str.
Tokyo 172]
gi|254365367|ref|ZP_04981412.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str.
Haarlem]
gi|289444252|ref|ZP_06433996.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46]
gi|289448365|ref|ZP_06438109.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
CPHL_A]
gi|289570886|ref|ZP_06451113.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17]
gi|289575408|ref|ZP_06455635.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85]
gi|289751363|ref|ZP_06510741.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92]
gi|289754812|ref|ZP_06514190.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
EAS054]
gi|289758838|ref|ZP_06518216.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85]
gi|289762881|ref|ZP_06522259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM
1503]
gi|298526180|ref|ZP_07013589.1| RNA polymerase principal sigma factor SigB [Mycobacterium
tuberculosis 94_M4241A]
gi|307085405|ref|ZP_07494518.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu012]
gi|313659647|ref|ZP_07816527.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis KZN
V2475]
gi|339632722|ref|YP_004724364.1| RNA polymerase sigma factor SigB [Mycobacterium africanum GM041182]
gi|340627711|ref|YP_004746163.1| RNA polymerase sigma factor SIGB [Mycobacterium canettii CIPT
140010059]
gi|378772440|ref|YP_005172173.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Mexico]
gi|385999490|ref|YP_005917789.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CTRI-2]
gi|386005585|ref|YP_005923864.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
RGTB423]
gi|392387342|ref|YP_005308971.1| sigB [Mycobacterium tuberculosis UT205]
gi|397674619|ref|YP_006516154.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis H37Rv]
gi|424805050|ref|ZP_18230481.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis W-148]
gi|433627826|ref|YP_007261455.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140060008]
gi|433631811|ref|YP_007265439.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070010]
gi|433635772|ref|YP_007269399.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070017]
gi|433642896|ref|YP_007288655.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070008]
gi|1171103|gb|AAA86044.1| sigma factor MysB [Mycobacterium tuberculosis H37Rv]
gi|13882539|gb|AAK47099.1| RNA polymerase principal sigma factor SigB [Mycobacterium
tuberculosis CDC1551]
gi|31619476|emb|CAD94914.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium bovis AF2122/97]
gi|121494233|emb|CAL72711.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Pasteur 1173P2]
gi|134150880|gb|EBA42925.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis str.
Haarlem]
gi|148506703|gb|ABQ74512.1| RNA polymerase sigma factor [Mycobacterium tuberculosis H37Ra]
gi|224774192|dbj|BAH26998.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Tokyo
172]
gi|289417171|gb|EFD14411.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T46]
gi|289421323|gb|EFD18524.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
CPHL_A]
gi|289539839|gb|EFD44417.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis K85]
gi|289544640|gb|EFD48288.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T17]
gi|289691950|gb|EFD59379.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis T92]
gi|289695399|gb|EFD62828.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
EAS054]
gi|289710387|gb|EFD74403.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis GM
1503]
gi|289714402|gb|EFD78414.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis T85]
gi|298495974|gb|EFI31268.1| RNA polymerase principal sigma factor SigB [Mycobacterium
tuberculosis 94_M4241A]
gi|308365051|gb|EFP53902.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis
SUMu012]
gi|326904326|gb|EGE51259.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis W-148]
gi|339332078|emb|CCC27784.1| RNA polymerase sigma factor SIGB [Mycobacterium africanum GM041182]
gi|340005901|emb|CCC45067.1| RNA polymerase sigma factor SIGB [Mycobacterium canettii CIPT
140010059]
gi|341602623|emb|CCC65299.1| RNA polymerase sigma factor sigB [Mycobacterium bovis BCG str.
Moreau RDJ]
gi|344220537|gb|AEN01168.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
CTRI-2]
gi|356594761|gb|AET19990.1| RNA polymerase sigma factor [Mycobacterium bovis BCG str. Mexico]
gi|378545893|emb|CCE38171.1| sigB [Mycobacterium tuberculosis UT205]
gi|380726073|gb|AFE13868.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis
RGTB423]
gi|395139524|gb|AFN50683.1| RNA polymerase sigma factor sigB [Mycobacterium tuberculosis H37Rv]
gi|432155432|emb|CCK52682.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140060008]
gi|432159444|emb|CCK56748.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070008]
gi|432163404|emb|CCK60812.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070010]
gi|432167365|emb|CCK64876.1| RNA polymerase sigma factor SigB (Sigma-B) [Mycobacterium canettii
CIPT 140070017]
gi|440582187|emb|CCG12590.1| RNA POLYMERASE SIGMA FACTOR SIGB [Mycobacterium tuberculosis
7199-99]
gi|444896247|emb|CCP45508.1| RNA polymerase sigma factor SigB [Mycobacterium tuberculosis H37Rv]
Length = 323
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 74/130 (56%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+E K +G
Sbjct: 25 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLETRKRLGE 70
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 131 DYTKGFKFST 140
Score = 70.1 bits (170), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAELLHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERD 304
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 305 VMSKLRHG 312
>gi|108799152|ref|YP_639349.1| RNA polymerase sigma factor [Mycobacterium sp. MCS]
gi|119868267|ref|YP_938219.1| RNA polymerase sigma factor [Mycobacterium sp. KMS]
gi|108769571|gb|ABG08293.1| RNA polymerase, sigma 28 subunit [Mycobacterium sp. MCS]
gi|119694356|gb|ABL91429.1| RNA polymerase, sigma 70 subunit, RpoD family [Mycobacterium sp.
KMS]
Length = 480
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q L L ++ KL Q R+ ++
Sbjct: 178 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKLAELAEKGEKLPVQQRRD---MQ 234
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 235 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 281
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 282 RAVEKFDYTKGYKFST 297
Score = 67.4 bits (163), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 49/61 (80%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 407 LLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 466
Query: 457 K 457
+
Sbjct: 467 R 467
>gi|237803044|ref|YP_002888238.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT]
gi|231274278|emb|CAX11073.1| RNA polymerase sigma factor [Chlamydia trachomatis B/Jali20/OT]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 462
Score = 68.2 bits (165), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 58/95 (61%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEVTGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|449461399|ref|XP_004148429.1| PREDICTED: RNA polymerase sigma factor sigC-like [Cucumis sativus]
gi|449507267|ref|XP_004162982.1| PREDICTED: RNA polymerase sigma factor sigC-like [Cucumis sativus]
Length = 559
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 71/114 (62%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
L+ A E E+ ++ + LE+ + L+ + GR ++ WA+A + +DL+ +L G+
Sbjct: 263 LIVAINEAEMSTGVKVVANLERIRETLEKESGRIASMSCWAEAASVDIKDLQKQLQFGSF 322
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
R++L+ + LVV +AK+Y+ G+ + DL+Q G++G+++ VE+F P+ G R +
Sbjct: 323 CRDELLRSTNSLVVFLAKKYRCSGLPMEDLVQAGALGVLQGVERFDPKRGFRIS 376
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 55/76 (72%)
Query: 382 ANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 441
A+ ++ P+ +V+++LM++ + N+L L +ER ++ LR+G+ D +PKSL E+G + +S
Sbjct: 471 ADMSIQSPEETVKRKLMKKDIFNILQRLESRERQVLVLRYGLVDFEPKSLEEIGKLLHIS 530
Query: 442 KERVRQLESRALYRLK 457
KE VR++E +A+ +LK
Sbjct: 531 KEWVRKIEKKAMTKLK 546
>gi|15605346|ref|NP_220132.1| RNA polymerase sigma factor [Chlamydia trachomatis D/UW-3/CX]
gi|76789354|ref|YP_328440.1| RNA polymerase sigma factor [Chlamydia trachomatis A/HAR-13]
gi|166154830|ref|YP_001654948.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu]
gi|166155705|ref|YP_001653960.1| RNA polymerase sigma factor [Chlamydia trachomatis
L2b/UCH-1/proctitis]
gi|255311437|ref|ZP_05354007.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276]
gi|255317738|ref|ZP_05358984.1| RNA polymerase sigma factor [Chlamydia trachomatis 6276s]
gi|255348997|ref|ZP_05381004.1| RNA polymerase sigma factor [Chlamydia trachomatis 70]
gi|255503536|ref|ZP_05381926.1| RNA polymerase sigma factor [Chlamydia trachomatis 70s]
gi|255507214|ref|ZP_05382853.1| RNA polymerase sigma factor [Chlamydia trachomatis D(s)2923]
gi|301336109|ref|ZP_07224353.1| RNA polymerase sigma factor [Chlamydia trachomatis L2tet1]
gi|376282624|ref|YP_005156450.1| RNA polymerase sigma factor [Chlamydia trachomatis A2497]
gi|385240146|ref|YP_005807988.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9768]
gi|385241998|ref|YP_005809838.1| RNA polymerase sigma factor [Chlamydia trachomatis E/11023]
gi|385242925|ref|YP_005810764.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9301]
gi|385243822|ref|YP_005811668.1| RNA polymerase sigma factor [Chlamydia trachomatis D-EC]
gi|385244702|ref|YP_005812546.1| RNA polymerase sigma factor [Chlamydia trachomatis D-LC]
gi|385245606|ref|YP_005814429.1| RNA polymerase sigma factor [Chlamydia trachomatis E/150]
gi|385246532|ref|YP_005815354.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11074]
gi|385270327|ref|YP_005813487.1| RNA polymerase sigma factor [Chlamydia trachomatis A2497]
gi|386262970|ref|YP_005816249.1| RNA polymerase sigma factor [Chlamydia trachomatis Sweden2]
gi|389858309|ref|YP_006360551.1| RNA polymerase sigma factor [Chlamydia trachomatis F/SW4]
gi|389859185|ref|YP_006361426.1| RNA polymerase sigma factor [Chlamydia trachomatis E/SW3]
gi|389860061|ref|YP_006362301.1| RNA polymerase sigma factor [Chlamydia trachomatis F/SW5]
gi|1710679|sp|P18333.2|RPOD_CHLTR RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A;
AltName: Full=Sigma-66; AltName: Full=Sigma-70
gi|144609|gb|AAA23165.1| RNA polymerase sigma-subunit [Chlamydia trachomatis]
gi|3329060|gb|AAC68218.1| RNA Polymerase Sigma-66 [Chlamydia trachomatis D/UW-3/CX]
gi|76167884|gb|AAX50892.1| RpoD [Chlamydia trachomatis A/HAR-13]
gi|165930818|emb|CAP04316.1| RNA polymerase sigma factor [Chlamydia trachomatis 434/Bu]
gi|165931693|emb|CAP07270.1| RNA polymerase sigma factor [Chlamydia trachomatis
L2b/UCH-1/proctitis]
gi|289525658|emb|CBJ15139.1| RNA polymerase sigma factor [Chlamydia trachomatis Sweden2]
gi|296435222|gb|ADH17400.1| RNA polymerase sigma factor [Chlamydia trachomatis E/150]
gi|296436151|gb|ADH18325.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9768]
gi|296438011|gb|ADH20172.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11074]
gi|296438941|gb|ADH21094.1| RNA polymerase sigma factor [Chlamydia trachomatis E/11023]
gi|297140513|gb|ADH97271.1| RNA polymerase sigma factor [Chlamydia trachomatis G/9301]
gi|297748745|gb|ADI51291.1| RpoD [Chlamydia trachomatis D-EC]
gi|297749625|gb|ADI52303.1| RpoD [Chlamydia trachomatis D-LC]
gi|347975467|gb|AEP35488.1| RpoD [Chlamydia trachomatis A2497]
gi|371908654|emb|CAX09286.1| RNA polymerase sigma factor [Chlamydia trachomatis A2497]
gi|380249381|emb|CCE14677.1| RNA polymerase sigma factor [Chlamydia trachomatis F/SW5]
gi|380250256|emb|CCE13788.1| RNA polymerase sigma factor [Chlamydia trachomatis F/SW4]
gi|380251134|emb|CCE12899.1| RNA polymerase sigma factor [Chlamydia trachomatis E/SW3]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 462
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|144616|gb|AAA23168.1| sigma-A protein (sigA) [Chlamydia muridarum]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 95/176 (53%), Gaps = 13/176 (7%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKQEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY--RLKQSLGGKASYGYADLL 472
L +E GK + E+G G + +RVR++ A + L+ +G + D L
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFL 465
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKKVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|375142610|ref|YP_005003259.1| sigma-70 family RNA polymerase sigma factor [Mycobacterium
rhodesiae NBB3]
gi|359823231|gb|AEV76044.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
rhodesiae NBB3]
Length = 319
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLATRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYAKGFKFST 136
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMAKLRNG 308
>gi|158313089|ref|YP_001505597.1| RpoD family RNA polymerase sigma factor [Frankia sp. EAN1pec]
gi|158108494|gb|ABW10691.1| RNA polymerase, sigma 70 subunit, RpoD family [Frankia sp. EAN1pec]
Length = 423
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 52/67 (77%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL + G +++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 174 RDLGVLVTDGQAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 233
Query: 377 AGCRFAN 383
G +F+
Sbjct: 234 KGYKFST 240
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L LNP+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 351 MQDEIDNVLGALNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 410
Query: 458 Q 458
+
Sbjct: 411 K 411
>gi|392416004|ref|YP_006452609.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
chubuense NBB4]
gi|390615780|gb|AFM16930.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium
chubuense NBB4]
Length = 319
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + R L++ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE------------AGLYARH--LLQTRKRLGD 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYSKGFKFST 136
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 50/66 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|339626307|ref|YP_004717786.1| RNA polymerase sigma factor rpoD [Chlamydia trachomatis L2c]
gi|339461188|gb|AEJ77691.1| RNA polymerase sigma factor rpoD [Chlamydia trachomatis L2c]
gi|438690552|emb|CCP49809.1| RNA polymerase sigma factor [Chlamydia trachomatis A/7249]
gi|438691637|emb|CCP48911.1| RNA polymerase sigma factor [Chlamydia trachomatis A/5291]
gi|438693010|emb|CCP48012.1| RNA polymerase sigma factor [Chlamydia trachomatis A/363]
gi|440526428|emb|CCP51912.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/8200/07]
gi|440527326|emb|CCP52810.1| RNA polymerase sigma factor [Chlamydia trachomatis D/SotonD1]
gi|440528218|emb|CCP53702.1| RNA polymerase sigma factor [Chlamydia trachomatis D/SotonD5]
gi|440529109|emb|CCP54593.1| RNA polymerase sigma factor [Chlamydia trachomatis D/SotonD6]
gi|440529999|emb|CCP55483.1| RNA polymerase sigma factor [Chlamydia trachomatis E/SotonE4]
gi|440530898|emb|CCP56382.1| RNA polymerase sigma factor [Chlamydia trachomatis E/SotonE8]
gi|440531789|emb|CCP57299.1| RNA polymerase sigma factor [Chlamydia trachomatis F/SotonF3]
gi|440532682|emb|CCP58192.1| RNA polymerase sigma factor [Chlamydia trachomatis G/SotonG1]
gi|440535366|emb|CCP60876.1| RNA polymerase sigma factor [Chlamydia trachomatis E/Bour]
gi|440536253|emb|CCP61766.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/795]
gi|440537146|emb|CCP62660.1| RNA polymerase sigma factor [Chlamydia trachomatis L1/440/LN]
gi|440538035|emb|CCP63549.1| RNA polymerase sigma factor [Chlamydia trachomatis L1/1322/p2]
gi|440538925|emb|CCP64439.1| RNA polymerase sigma factor [Chlamydia trachomatis L1/115]
gi|440539814|emb|CCP65328.1| RNA polymerase sigma factor [Chlamydia trachomatis L1/224]
gi|440540706|emb|CCP66220.1| RNA polymerase sigma factor [Chlamydia trachomatis L2/25667R]
gi|440541594|emb|CCP67108.1| RNA polymerase sigma factor [Chlamydia trachomatis L3/404/LN]
gi|440542481|emb|CCP67995.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/UCH-2]
gi|440543372|emb|CCP68886.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Canada2]
gi|440544263|emb|CCP69777.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/LST]
gi|440545153|emb|CCP70667.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Ams1]
gi|440546043|emb|CCP71557.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/CV204]
gi|440914305|emb|CCP90722.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Ams2]
gi|440915195|emb|CCP91612.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Ams3]
gi|440916086|emb|CCP92503.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Canada1]
gi|440916981|emb|CCP93398.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Ams4]
gi|440917871|emb|CCP94288.1| RNA polymerase sigma factor [Chlamydia trachomatis L2b/Ams5]
Length = 569
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 294 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 349
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 350 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 409
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 410 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 460
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 460 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 519
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 520 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 554
>gi|376284922|ref|YP_005158132.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae 31A]
gi|371578437|gb|AEX42105.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae 31A]
Length = 329
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 74/129 (57%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ L +++ E + +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE---------VGLYAEYLLENSQEPLTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 138 YSKGFKFST 146
Score = 62.8 bits (151), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +R +L L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 251 AVVASLRHSDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIERE 310
Query: 452 ALYRLKQSLGGKASYGYA 469
+ +L+ + YA
Sbjct: 311 VMSKLRDGARAEKLRAYA 328
>gi|318041996|ref|ZP_07973952.1| RNA polymerase sigma factor, sigma-70 family protein [Synechococcus
sp. CB0101]
Length = 318
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 42/119 (35%), Positives = 71/119 (59%), Gaps = 17/119 (14%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC--RDL-KSELH 324
+LLT ++E L ++Q ++ L + A +G +C D+ K +
Sbjct: 25 QLLTPEQELMLGRKVQAMVALHERCHS--------------AGGVGEACSYNDIEKRTMR 70
Query: 325 SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G +++++I ANLRLVV++AK+YQG+G+ L DL+QEG++GL ++VEK+ P G RF+
Sbjct: 71 VGERAKDQMITANLRLVVNLAKRYQGKGLDLLDLIQEGTLGLTRAVEKYDPTRGHRFST 129
Score = 46.2 bits (108), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 37/53 (69%), Gaps = 3/53 (5%)
Query: 409 LNPKERCIVRLRFGIEDG--KPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
L PKER +V LRFG+ DG + ++L+EV + G S+E RQ+ RAL +L+++
Sbjct: 255 LTPKERTVVMLRFGL-DGSHEWRTLAEVARLLGCSREYCRQVVQRALRKLRKA 306
>gi|385241071|ref|YP_005808912.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11222]
gi|296437079|gb|ADH19249.1| RNA polymerase sigma factor [Chlamydia trachomatis G/11222]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/178 (31%), Positives = 99/178 (55%), Gaps = 25/178 (14%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E GK + E+G G + +RVR+ +Y++ Q SL GG++S+G
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVRE-----IYKIAQHPISLQAEVGDGGESSFG 462
Score = 69.3 bits (168), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|108804647|ref|YP_644584.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941]
gi|108765890|gb|ABG04772.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM
9941]
Length = 304
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/55 (60%), Positives = 44/55 (80%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+R+KLI NLRLVV VAK+Y+G G+ DL+QEG++GLMK+VEKF P+ G RF+
Sbjct: 67 ARQKLIEKNLRLVVSVAKKYRGYGLPFEDLIQEGNIGLMKAVEKFDPERGFRFST 121
Score = 43.1 bits (100), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 45/74 (60%), Gaps = 1/74 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+ PD +V K+L ++ + L + R ++ R+G++D +P +L+E+G+ +S+ERVR
Sbjct: 223 DTPD-TVLKELESSQLKEAIERLPERARYVLVRRYGLDDREPATLAELGDELKISRERVR 281
Query: 447 QLESRALYRLKQSL 460
QL+ A LK +
Sbjct: 282 QLQREAERLLKAGI 295
>gi|38233998|ref|NP_939765.1| RNA polymerase sigma factor SigB [Corynebacterium diphtheriae NCTC
13129]
gi|375291083|ref|YP_005125623.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae 241]
gi|376243018|ref|YP_005133870.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae CDCE
8392]
gi|376245915|ref|YP_005136154.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC01]
gi|376248702|ref|YP_005140646.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC04]
gi|376251501|ref|YP_005138382.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC03]
gi|376257315|ref|YP_005145206.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae VA01]
gi|376287931|ref|YP_005160497.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae BH8]
gi|376290620|ref|YP_005162867.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae C7
(beta)]
gi|376293422|ref|YP_005165096.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC02]
gi|419860982|ref|ZP_14383622.1| RNA polymerase sigma factor SigB [Corynebacterium diphtheriae bv.
intermedius str. NCTC 5011]
gi|38605711|sp|P33118.2|RPSB_CORDI RecName: Full=RNA polymerase sigma factor SigB
gi|38200260|emb|CAE49944.1| RNA polymerase sigma factor [Corynebacterium diphtheriae]
gi|371580754|gb|AEX44421.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae 241]
gi|371585265|gb|AEX48930.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae BH8]
gi|372104016|gb|AEX67613.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae C7
(beta)]
gi|372106260|gb|AEX72322.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae CDCE
8392]
gi|372108545|gb|AEX74606.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC01]
gi|372110745|gb|AEX76805.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC02]
gi|372113005|gb|AEX79064.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC03]
gi|372115270|gb|AEX81328.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae HC04]
gi|372119832|gb|AEX83566.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae VA01]
gi|387982666|gb|EIK56167.1| RNA polymerase sigma factor SigB [Corynebacterium diphtheriae bv.
intermedius str. NCTC 5011]
Length = 329
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 74/129 (57%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ L +++ E + +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE---------VGLYAEYLLENSQEPLTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 138 YSKGFKFST 146
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +R +L L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 251 AVVASLRHSDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIERE 310
Query: 452 ALYRLKQSLGGKASYGYA 469
+ +L+ + YA
Sbjct: 311 VMSKLRDGARAEKLRAYA 328
>gi|384209488|ref|YP_005595208.1| RNA polymerase sigma factor RpoD [Brachyspira intermedia PWS/A]
gi|343387138|gb|AEM22628.1| RNA polymerase sigma factor RpoD [Brachyspira intermedia PWS/A]
Length = 587
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 71/278 (25%), Positives = 131/278 (47%), Gaps = 47/278 (16%)
Query: 118 HQFLHWPDLWNLSPPMKRG--------EDPSVSLTMQSLSNDTEESVDAEPFDAVALARK 169
H+ L P ++N+S KR E V+L + L+ D AL ++
Sbjct: 159 HEILEPPRIYNVSTQEKRKLERKYKNFEKEYVALAEKYLALDKRIKKITTQKTIKALTKE 218
Query: 170 ALSASKEAASLAENPKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQ 229
+ L +LN E I+ L + L + Q + + E+ K+ +
Sbjct: 219 QEEVKENIVKLLTKVRLNRMEIDRIA--EKLKFYLHRINQIEE--YFEKLKKR---YYKE 271
Query: 230 VTNHETYNSRKASVKKKLSEGFDRNDPLRL---FLWGPE-TRKLLTADEEFEL-IAQIQD 284
+++ E Y K++ G +++ +RL F PE ++T+ + ++ +A I D
Sbjct: 272 ISDFENYY-------KEIESG-NKDIYIRLVDEFNITPEAIEAVITSFHKAQVRMADIYD 323
Query: 285 LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHV 344
+R++KE TL+EW + I S R + +++ ++ ANLRLV+ +
Sbjct: 324 EVRIDKE------------TLVEWVRKIDSSRRKIAQ-------AKDHIVKANLRLVIAI 364
Query: 345 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F+
Sbjct: 365 AKKYVNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFS 402
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 47/62 (75%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++R+ + ++L L +E+ ++R+RFG+ DG +L EVG +F +++ER+RQ+E++A+ R
Sbjct: 512 KILRKQIDSILDSLPDREQKVIRMRFGLVDGYSHTLEEVGYVFKVTRERIRQIEAKAIRR 571
Query: 456 LK 457
L+
Sbjct: 572 LR 573
>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 = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 51/127 (40%), Positives = 70/127 (55%), Gaps = 2/127 (1%)
Query: 262 WGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS 321
W R LT EE L + RL++ + K REP+ EWAK +S + L+
Sbjct: 21 WDKLPRLRLTGPEEVRLAWFMAPAKRLQQVRLKFFEHLKREPSEEEWAKVAEMSVQTLRR 80
Query: 322 ELHSGNSSREKLINANLRLVVHVAKQY--QGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
L SG ++R K+I NLRLV H A++Y + +SL DL QEG GLM +V+KF P+ G
Sbjct: 81 LLQSGQAARNKMIKHNLRLVAHQARKYFKEELSLSLLDLCQEGVPGLMSAVDKFDPKKGY 140
Query: 380 RFANTGV 386
RF+ V
Sbjct: 141 RFSTYAV 147
Score = 45.4 bits (106), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 37/61 (60%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
+R + ++L L PKE I+R R+G++ +S +E+G LS+E VR+ E R + +LK
Sbjct: 254 LRLGMDDVLDSLKPKESLIIRQRYGLDGKGERSFTEIGRNLNLSREMVRKYEIRGMMKLK 313
Query: 458 Q 458
Sbjct: 314 H 314
>gi|189485247|ref|YP_001956188.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium
phylotype Rs-D17]
gi|170287206|dbj|BAG13727.1| RNA polymerase sigma factor [uncultured Termite group 1 bacterium
phylotype Rs-D17]
Length = 573
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/192 (29%), Positives = 96/192 (50%), Gaps = 34/192 (17%)
Query: 280 AQIQDLI-RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+++LI +L K K + Q GREPT+ E++K + LSC ++ L K++ +
Sbjct: 415 VHMKELISKLTKSKKECQQNMGREPTIQEYSKILKLSCDRIRRIL--------KMMQEPV 466
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
L + V ++ R L D +++ + P P + Q+ +
Sbjct: 467 SLAMPVGEEEDSR---LEDFIEDQN----------SPN------------PVVKTQQYRL 501
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ + +L L P+E I+RLR+GI G P +L EVG FG+++ERVRQ+E++A+ +LK
Sbjct: 502 QLELEKVLATLAPREAEIIRLRYGIGIGYPSTLEEVGKKFGITRERVRQIEAKAIRKLKY 561
Query: 459 SLGGKASYGYAD 470
K+ Y D
Sbjct: 562 PRRNKSLREYLD 573
Score = 60.1 bits (144), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/143 (30%), Positives = 76/143 (53%), Gaps = 19/143 (13%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG-RGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ +H + KLI AN RLVV +AK++ G + L DL+QEG++GL K+VEKF+
Sbjct: 325 IRELEYVIHR---DKMKLIEANFRLVVSIAKKHVGISNLELSDLIQEGNLGLSKAVEKFE 381
Query: 375 PQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLT-LLNPKERCIVRLRFGIED 425
+ G +F+ S+ + + Q H++ L++ L K+ C +
Sbjct: 382 WKRGFKFSTYATWWIRQSINRAIADQARTIRIPVHMKELISKLTKSKKECQQNM------ 435
Query: 426 GKPKSLSEVGNIFGLSKERVRQL 448
G+ ++ E I LS +R+R++
Sbjct: 436 GREPTIQEYSKILKLSCDRIRRI 458
>gi|379736727|ref|YP_005330233.1| RNA polymerase sigma factor sigB [Blastococcus saxobsidens DD2]
gi|378784534|emb|CCG04203.1| RNA polymerase sigma factor sigB [Blastococcus saxobsidens DD2]
Length = 328
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/136 (35%), Positives = 74/136 (54%), Gaps = 13/136 (9%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
+ G D +R++L LLTA++E EL +I+ + E+ L Q G P
Sbjct: 23 TSGLVSTDLVRVYLNTIGKTALLTAEQEVELAKRIEAGLYAER---LLAEQQGLTPA--- 76
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RD K+ G +++ L+ ANLRLVV VAK+Y G G++ DL+QEG++GL+
Sbjct: 77 -------RKRDYKTLATDGKAAKAHLLEANLRLVVSVAKRYTGHGMTFLDLIQEGNVGLI 129
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 130 RAVEKFDYTKGFKFST 145
Score = 66.2 bits (160), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 46/62 (74%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
Q+M+ VR +L+ L +ER +V LRFG++ G+P++L ++G FGLS+ERVRQ+E + +
Sbjct: 254 QMMKGDVRTVLSTLEDRERDVVVLRFGLDGGQPRTLEQIGKQFGLSRERVRQIERETMAK 313
Query: 456 LK 457
L+
Sbjct: 314 LR 315
>gi|374608203|ref|ZP_09681002.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
tusciae JS617]
gi|373553735|gb|EHP80322.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
tusciae JS617]
Length = 319
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLATRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYAKGFKFST 136
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/66 (40%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLK 457
+ +L+
Sbjct: 301 VMAKLR 306
>gi|302545597|ref|ZP_07297939.1| RNA polymerase sigma (70) factor RpoD [Streptomyces hygroscopicus
ATCC 53653]
gi|302463215|gb|EFL26308.1| RNA polymerase sigma (70) factor RpoD [Streptomyces himastatinicus
ATCC 53653]
Length = 443
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 370 LLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 429
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 430 RDHAFADQLRGYLD 443
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 48/66 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 195 DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 254
Query: 378 GCRFAN 383
G +F+
Sbjct: 255 GYKFST 260
>gi|15835519|ref|NP_297278.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg]
gi|270285702|ref|ZP_06195096.1| RNA polymerase sigma factor [Chlamydia muridarum Nigg]
gi|270289710|ref|ZP_06196012.1| RNA polymerase sigma factor [Chlamydia muridarum Weiss]
gi|301337097|ref|ZP_07225299.1| RNA polymerase sigma factor [Chlamydia muridarum MopnTet14]
gi|7388084|sp|P56835.1|RPOD_CHLMU RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A;
AltName: Full=Sigma-66; AltName: Full=Sigma-70
gi|7190932|gb|AAF39698.1| RNA polymerase sigma factor RpoD [Chlamydia muridarum Nigg]
Length = 571
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 95/176 (53%), Gaps = 13/176 (7%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQ--HVR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY--RLKQSLGGKASYGYADLL 472
L +E GK + E+G G + +RVR++ A + L+ +G + D L
Sbjct: 412 LM--METGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFL 465
Score = 69.7 bits (169), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 59/95 (62%)
Query: 378 GCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 437
G +T VE P + +++ ++ +L L +ER ++ RFG+ DG+PK+L EVG+
Sbjct: 462 GDFLEDTAVESPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSA 521
Query: 438 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ + K + DLL
Sbjct: 522 FNVTRERIRQIEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|448823552|ref|YP_007416717.1| RNA polymerase sigma factor B [Corynebacterium urealyticum DSM
7111]
gi|448277049|gb|AGE36473.1| RNA polymerase sigma factor B [Corynebacterium urealyticum DSM
7111]
Length = 340
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 73/129 (56%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I E Q + + AK
Sbjct: 42 DLVRVYLNGIGKTALLTAEDEVELSQRI--------EAGLYAEQLLKSGEPLTRAKK--- 90
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD+K G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 91 --RDVKILAREGKAARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 148
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 149 YKKGFKFST 157
Score = 60.1 bits (144), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 43/58 (74%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+R++L L +E+ ++ LR+G++DG P++L ++G FGLS+ERVRQ+E + +L++
Sbjct: 272 IRSVLATLEQREQDVITLRYGLDDGLPRTLDQIGRQFGLSRERVRQIEREVMAKLREG 329
>gi|111023771|ref|YP_706743.1| RNA polymerase sigma factor SigB [Rhodococcus jostii RHA1]
gi|384100772|ref|ZP_10001829.1| RNA polymerase sigma factor SigB [Rhodococcus imtechensis RKJ300]
gi|397737305|ref|ZP_10503977.1| RNA polymerase principal sigma factor hrdA [Rhodococcus sp. JVH1]
gi|419965923|ref|ZP_14481858.1| RNA polymerase sigma factor SigB [Rhodococcus opacus M213]
gi|432340395|ref|ZP_19589837.1| RNA polymerase sigma factor SigB [Rhodococcus wratislaviensis IFP
2016]
gi|110823301|gb|ABG98585.1| sigma factor, sigma 70 type, group 2 (proven non-essential)
[Rhodococcus jostii RHA1]
gi|383841678|gb|EID80955.1| RNA polymerase sigma factor SigB [Rhodococcus imtechensis RKJ300]
gi|396926744|gb|EJI93981.1| RNA polymerase principal sigma factor hrdA [Rhodococcus sp. JVH1]
gi|414568597|gb|EKT79355.1| RNA polymerase sigma factor SigB [Rhodococcus opacus M213]
gi|430774588|gb|ELB90174.1| RNA polymerase sigma factor SigB [Rhodococcus wratislaviensis IFP
2016]
Length = 323
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG- 313
D +R++L G LLTA +E EL +I+ + L + ++E K +
Sbjct: 25 DLVRVYLNGIGRTALLTAADEVELSKRIE---------AGLYAAH-----ILETGKRLSP 70
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL + + G S+R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 AKKRDLATVVREGQSARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 131 DYAKGFKFST 140
Score = 70.9 bits (172), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAGLLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 305 VMGKLRQG 312
>gi|6682871|dbj|BAA88922.1| sigma factor [Nicotiana tabacum]
Length = 502
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/196 (28%), Positives = 107/196 (54%), Gaps = 16/196 (8%)
Query: 260 FLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDL 319
++ G ++LLT E +L +I+ + LE++KS+L+ + G EP+ + A ++ +S DL
Sbjct: 190 YINGVVGQELLTHTEVVQLSKKIKFGLYLEEQKSRLKERLGCEPSDDQLAISLKISRADL 249
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+S L + +REKL +N+RLV+ +A++Y G + DL+Q G +GL++ +EKF G
Sbjct: 250 RSTLIECSLAREKLAMSNVRLVMSIAQRYDTNGTEMADLIQGGLIGLLRGIEKFDHSRGF 309
Query: 380 RFANTGVEIPDISVQKQLMRQ--------HVRNLLTLL-NPKERCIVRLRFGIEDGKPKS 430
+ + V + L+ H+ L+L+ N K ++L+ E+G S
Sbjct: 310 KISTYVYWWIRQGVSRALVENSRTLRLPIHLHERLSLIRNAK----IKLK---ENGITPS 362
Query: 431 LSEVGNIFGLSKERVR 446
+ ++ +S+++VR
Sbjct: 363 IEKIAECLNMSQKKVR 378
Score = 42.7 bits (99), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 44/73 (60%), Gaps = 2/73 (2%)
Query: 388 IPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
IP V + +++ V NL++ L +ER IVRL +G+ D + + ++ GLS+ERVR
Sbjct: 418 IPWHGVDEWMLKDEVNNLISSTLREREREIVRLYYGL-DNECLTWEDISRRIGLSRERVR 476
Query: 447 QLESRALYRLKQS 459
Q+ AL +LK +
Sbjct: 477 QVGLVALEKLKHA 489
>gi|375293289|ref|YP_005127828.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae INCA
402]
gi|376254504|ref|YP_005142963.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae PW8]
gi|371582960|gb|AEX46626.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae INCA
402]
gi|372117588|gb|AEX70058.1| RNA polymerase sigma factor B [Corynebacterium diphtheriae PW8]
Length = 329
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 47/129 (36%), Positives = 74/129 (57%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ L +++ E + +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE---------VGLYAEYLLENSQEPLTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 138 YSKGFKFST 146
Score = 63.2 bits (152), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 48/78 (61%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +R +L L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 251 AVVASLRHSDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIERE 310
Query: 452 ALYRLKQSLGGKASYGYA 469
+ +L+ + YA
Sbjct: 311 VMSKLRDGARAEKLRAYA 328
>gi|336325738|ref|YP_004605704.1| RNA polymerase sigma factor B [Corynebacterium resistens DSM 45100]
gi|336101720|gb|AEI09540.1| RNA polymerase sigma factor B [Corynebacterium resistens DSM 45100]
Length = 337
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/128 (37%), Positives = 72/128 (56%), Gaps = 13/128 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I E + T + A+
Sbjct: 39 DLVRVYLNGIGKTALLTAEDEVELSQRI--------EVGLYAEHLLKNSTDLTRARK--- 87
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 88 --RDLKILAREGKAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 145
Query: 375 PQAGCRFA 382
G +F+
Sbjct: 146 YTKGFKFS 153
Score = 61.6 bits (148), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 46/68 (67%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L VR +L L +E+ +++LR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 259 AVVASLRHSDVRAVLGTLEEREQDVIKLRYGLDDGMPRTLDQIGRRFGLSRERVRQIERE 318
Query: 452 ALYRLKQS 459
+ +L++
Sbjct: 319 VMAKLREG 326
>gi|172040574|ref|YP_001800288.1| RNA polymerase sigma factor SigB [Corynebacterium urealyticum DSM
7109]
gi|171851878|emb|CAQ04854.1| RNA polymerase sigma factor B [Corynebacterium urealyticum DSM
7109]
Length = 340
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/129 (37%), Positives = 73/129 (56%), Gaps = 13/129 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I E Q + + AK
Sbjct: 42 DLVRVYLNGIGKTALLTAEDEVELSQRI--------EAGLYAEQLLKSGEPLTRAKK--- 90
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD+K G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 91 --RDVKILAREGKAARTHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 148
Query: 375 PQAGCRFAN 383
+ G +F+
Sbjct: 149 YKKGFKFST 157
Score = 60.1 bits (144), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 43/58 (74%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 459
+R++L L +E+ ++ LR+G++DG P++L ++G FGLS+ERVRQ+E + +L++
Sbjct: 272 IRSVLATLEQREQDVITLRYGLDDGLPRTLDQIGRQFGLSRERVRQIEREVMAKLREG 329
>gi|19553123|ref|NP_601125.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC
13032]
gi|62390759|ref|YP_226161.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC
13032]
gi|1149591|emb|CAA89988.1| SigB sigma factor [Corynebacterium glutamicum]
gi|21324689|dbj|BAB99312.1| DNA-directed RNA polymerase sigma subunits (sigma70/sigma32) (SigB)
[Corynebacterium glutamicum ATCC 13032]
gi|41326097|emb|CAF20260.1| RNA POLYMERASE SIGMA FACTOR [Corynebacterium glutamicum ATCC 13032]
gi|385144025|emb|CCH25064.1| RNA polymerase sigma factor [Corynebacterium glutamicum K051]
Length = 331
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 75/129 (58%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL I+ + L E S+ EP +A+
Sbjct: 32 DLVRVYLNGIGKTALLTAEDEVELAQTIE--VGLYAEHLLKNSE---EP----LTRAM-- 80
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 81 -KRDLKVLAKDGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 139
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 140 YSKGFKFST 148
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 47/64 (73%), Gaps = 2/64 (3%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 461
+R +L L P+E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E + +L+ G
Sbjct: 263 IRAVLNTLEPREQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMSKLRD--G 320
Query: 462 GKAS 465
+AS
Sbjct: 321 ERAS 324
>gi|237785650|ref|YP_002906355.1| RNA polymerase sigma factor [Corynebacterium kroppenstedtii DSM
44385]
gi|237758562|gb|ACR17812.1| RNA polymerase sigma factor A [Corynebacterium kroppenstedtii DSM
44385]
Length = 621
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 49/67 (73%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+S H G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 371 SRDLRSIAHDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDY 430
Query: 376 QAGCRFA 382
G +F+
Sbjct: 431 TKGYKFS 437
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 47/61 (77%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L +E +VRLRFG+ DG P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 548 LLQDQLQDVLKTLTEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKL 607
Query: 457 K 457
+
Sbjct: 608 R 608
>gi|226366207|ref|YP_002783990.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4]
gi|424852224|ref|ZP_18276621.1| RNA polymerase sigma factor RpoS [Rhodococcus opacus PD630]
gi|226244697|dbj|BAH55045.1| RNA polymerase sigma factor SigB [Rhodococcus opacus B4]
gi|254553060|dbj|BAH85842.1| RNA polymerase sigma B factor [Rhodococcus opacus]
gi|356666889|gb|EHI46960.1| RNA polymerase sigma factor RpoS [Rhodococcus opacus PD630]
Length = 323
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 75/130 (57%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG- 313
D +R++L G LLTA +E EL +I+ + L + ++E K +
Sbjct: 25 DLVRVYLNGIGRTALLTAADEVELSKRIE---------AGLYAAH-----ILETGKRLSP 70
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL + + G S+R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 AKKRDLATVVREGQSARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 131 DYAKGFKFST 140
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 50/68 (73%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR +L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 245 AVIAGLLHSDVRTVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIERE 304
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 305 VMGKLRQG 312
>gi|108804071|ref|YP_644008.1| RNA polymerase sigma-28 subunit [Rubrobacter xylanophilus DSM 9941]
gi|108765314|gb|ABG04196.1| RNA polymerase, sigma 28 subunit [Rubrobacter xylanophilus DSM
9941]
Length = 294
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 33/55 (60%), Positives = 44/55 (80%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+R+KLI NLRLVV VAK+Y+G G+ DL+QEG++GLMK+VEKF P+ G RF+
Sbjct: 56 ARQKLIEKNLRLVVSVAKKYRGYGLPFEDLIQEGNIGLMKAVEKFDPERGFRFST 110
Score = 43.9 bits (102), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 46/78 (58%), Gaps = 1/78 (1%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
+ PD +V K+L ++ + L + R ++ R+G++D +P +L+E+G+ +S+ERVR
Sbjct: 212 DTPD-TVLKELESSQLKEAIERLPERARYVLVRRYGLDDREPATLAELGDELKISRERVR 270
Query: 447 QLESRALYRLKQSLGGKA 464
QL+ A LK G+
Sbjct: 271 QLQREAERILKSGEHGRV 288
>gi|429197710|ref|ZP_19189588.1| putative RNA polymerase sigma factor RpoD [Streptomyces ipomoeae
91-03]
gi|428666600|gb|EKX65745.1| putative RNA polymerase sigma factor RpoD [Streptomyces ipomoeae
91-03]
Length = 429
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 356 LLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 415
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 416 RDHAFADQLRGYLD 429
Score = 70.9 bits (172), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 48/66 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 181 DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 240
Query: 378 GCRFAN 383
G +F+
Sbjct: 241 GYKFST 246
>gi|271963879|ref|YP_003338075.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM
43021]
gi|270507054|gb|ACZ85332.1| RNA polymerase sigma factor RpoD [Streptosporangium roseum DSM
43021]
Length = 392
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 56/160 (35%), Positives = 85/160 (53%), Gaps = 20/160 (12%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
+V +PQ ET S + V K+ +D +R++L LLTA+EE EL I+
Sbjct: 71 EVLEPQ-GEEETTRSDEEDVGKRAPT----SDLVRIYLREIGRVPLLTAEEEVELAKSIE 125
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+ E KL S R L+ + K + G ++++LI ANLRLVV
Sbjct: 126 AGLFAE---DKLTSVVSR------------LAFPEFKELVWQGTRAKQRLIEANLRLVVS 170
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
+AK+Y GRG+ DL+QEG++GL+++VEKF G +F+
Sbjct: 171 IAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFST 210
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 50/74 (67%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
+++ + ++L L+ +E+ I++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 319 MLQDQLDDILATLSDREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTLAKL 378
Query: 457 KQSLGGKASYGYAD 470
+ + Y D
Sbjct: 379 RHPTRAQMLRDYLD 392
>gi|257056422|ref|YP_003134254.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis
DSM 43017]
gi|256586294|gb|ACU97427.1| RNA polymerase, sigma 70 subunit, RpoD [Saccharomonospora viridis
DSM 43017]
Length = 439
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 49/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRL-EKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I+ + +R+ E+E KL +Q
Sbjct: 137 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYAAERLRIAEEEGEKLSTQM-------- 188
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
RDLK + G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 189 --------RRDLKWIVRDGERAKSHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 240
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 241 RAVEKFDYTKGFKFST 256
Score = 68.9 bits (167), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 90/180 (50%), Gaps = 36/180 (20%)
Query: 278 LIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINAN 337
++ I L R+++E L GREPT E AK + +S EK++
Sbjct: 283 MVEVINKLGRIQRE---LLQDLGREPTPEELAKEMDISP--------------EKVLEI- 324
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQL 397
+QY ISL + G G Q G ++ + +V L
Sbjct: 325 --------QQYAREPISLDQTI--GDEG--------DSQLGDFIEDSEAVVAVDAVSFTL 366
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 367 LQDQLQSVLQTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 426
>gi|145295824|ref|YP_001138645.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum R]
gi|417971573|ref|ZP_12612496.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum S9114]
gi|418244265|ref|ZP_12870688.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC
14067]
gi|12958494|gb|AAK09322.1|AF320818_1 sigma factor SigB [[Brevibacterium] flavum]
gi|140845744|dbj|BAF54743.1| hypothetical protein [Corynebacterium glutamicum R]
gi|344044055|gb|EGV39736.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum S9114]
gi|354511671|gb|EHE84577.1| RNA polymerase sigma factor SigB [Corynebacterium glutamicum ATCC
14067]
Length = 331
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 51/129 (39%), Positives = 75/129 (58%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL I+ + L E S+ EP +A+
Sbjct: 32 DLVRVYLNGIGKTALLTAEDEVELAQTIE--VGLYAEHLLKNSE---EP----LTRAM-- 80
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 81 -KRDLKVLAKDGKKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 139
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 140 YSKGFKFST 148
Score = 65.1 bits (157), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 28/64 (43%), Positives = 47/64 (73%), Gaps = 2/64 (3%)
Query: 402 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 461
+R +L L P+E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E + +L+ G
Sbjct: 263 IRAVLNTLEPREQDVIRLRYGLDDGVPRTLDQIGRRFGLSRERVRQIEREVMSKLRD--G 320
Query: 462 GKAS 465
+AS
Sbjct: 321 ERAS 324
>gi|404476436|ref|YP_006707867.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli B2904]
gi|404437925|gb|AFR71119.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli B2904]
Length = 587
Score = 76.3 bits (186), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 77/282 (27%), Positives = 134/282 (47%), Gaps = 55/282 (19%)
Query: 118 HQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVD-AEPFDAV------ALARKA 170
H+ L P ++N+S KR + + N +E VD AE + A+ A +K
Sbjct: 159 HEILEPPRIYNVSTQEKRKLE-------RKYKNFEKEYVDLAEKYLALDKRIKKATTQKT 211
Query: 171 L-SASKEAASLAEN-------PKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKK 222
+ + + E + EN KLN E I+ L + L + Q + + E+ K+
Sbjct: 212 IKNLTNEQNEIKENIVKLLSKVKLNRMEIDRIA--EKLKFYLHRINQIEE--YFEKLKKR 267
Query: 223 RKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRK-LLTADEEFEL-IA 280
++++ E Y + S KK+ + F PE K +LT+ ++ +A
Sbjct: 268 ---YGKEISDFENYYNEIESGNKKIYTRL-----VDEFNITPEAIKAVLTSFHNSQVRMA 319
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I D +R +KE TL+EW + I S R + +++ ++ ANLRL
Sbjct: 320 DIYDEVRTDKE------------TLVEWVRKIDSSRRKIAQ-------AKDHIVKANLRL 360
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
V+ +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F+
Sbjct: 361 VISIAKKYTNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFS 402
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 50/64 (78%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++R+H+ +LL L +E+ ++R+R+G++DG +L EVG +F +++ER+RQ+E++A+ R
Sbjct: 512 KILRKHIDSLLDNLPEREQKVIRMRYGLDDGYNHTLEEVGYVFKVTRERIRQIEAKAIRR 571
Query: 456 LKQS 459
L+ +
Sbjct: 572 LRAT 575
>gi|449464016|ref|XP_004149725.1| PREDICTED: RNA polymerase sigma factor sigD, chloroplastic-like
[Cucumis sativus]
Length = 436
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 42/120 (35%), Positives = 67/120 (55%)
Query: 263 GPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322
GP L+ EE EL +++ + LE K+++ EPT + A A+G +
Sbjct: 133 GPLRPGYLSPKEEAELCLCLKEAVLLENVKTRIMETQEHEPTNKQLAIAMGTKSGCIDRI 192
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L SR++LI +LV+ +A YQG+G+SL DL QEG++GL+K E+F+P G + +
Sbjct: 193 LCRARESRDRLIRCYSKLVISIAAPYQGKGLSLQDLTQEGNIGLLKGAERFEPNRGHKLS 252
Score = 48.5 bits (114), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 42/71 (59%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P+ V ++LM+Q ++ LL L+ +E I+ L FG+ P+S E+G LS+E +RQ
Sbjct: 355 PENMVMRKLMKQELKRLLNTLSKREARILSLYFGLNGEIPQSFEEIGKSLNLSRETIRQT 414
Query: 449 ESRALYRLKQS 459
L +LK++
Sbjct: 415 NIATLSKLKKT 425
>gi|434381722|ref|YP_006703505.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli WesB]
gi|404430371|emb|CCG56417.1| RNA polymerase sigma-70 factor RpoD [Brachyspira pilosicoli WesB]
Length = 587
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 77/282 (27%), Positives = 134/282 (47%), Gaps = 55/282 (19%)
Query: 118 HQFLHWPDLWNLSPPMKRGEDPSVSLTMQSLSNDTEESVD-AEPFDAV------ALARKA 170
H+ L P ++N+S KR + + N +E VD AE + A+ A +K
Sbjct: 159 HEILEPPRIYNVSTQEKRKLE-------RKYKNFEKEYVDLAEKYLALDKRIKKATTQKT 211
Query: 171 L-SASKEAASLAEN-------PKLNGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKK 222
+ + + E + EN KLN E I+ L + L + Q + + E+ K+
Sbjct: 212 IKNLTNEQNEIKENIVKLLSKVKLNRMEIDRIA--EKLKFYLHRINQIEE--YFEKLKKR 267
Query: 223 RKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRK-LLTADEEFEL-IA 280
++++ E Y + S KK+ + F PE K +LT+ ++ +A
Sbjct: 268 ---YGKEISDFENYYNEIESGNKKIYTRL-----VDEFNITPEAIKAVLTSFHNSQVRMA 319
Query: 281 QIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I D +R +KE TL+EW + I S R + +++ ++ ANLRL
Sbjct: 320 DIYDEVRTDKE------------TLVEWVRKIDSSRRKIAQ-------AKDHIVKANLRL 360
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
V+ +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F+
Sbjct: 361 VISIAKKYTNRGLHFFDLVQEGNIGLIKAVDKFEYKKGYKFS 402
Score = 63.9 bits (154), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 50/64 (78%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+++R+H+ +LL L +E+ ++R+R+G++DG +L EVG +F +++ER+RQ+E++A+ R
Sbjct: 512 KILRKHIDSLLDNLPEREQKVIRMRYGLDDGYNHTLEEVGYVFKVTRERIRQIEAKAIRR 571
Query: 456 LKQS 459
L+ +
Sbjct: 572 LRAT 575
>gi|397629977|gb|EJK69584.1| hypothetical protein THAOC_09141 [Thalassiosira oceanica]
Length = 657
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/122 (33%), Positives = 71/122 (58%), Gaps = 5/122 (4%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG-LSCRDLKSELHSGNS 328
+T +E EL + Q+ +RL+K +L+ ++GR PT EW A G ++ LK + G
Sbjct: 337 VTPKQERELGTKTQEAMRLQKLHDELKIKYGRRPTDDEWCAAAGKINVFALKEAMQVGLE 396
Query: 329 SREKLINANLRLVVHVAKQYQGRGI----SLHDLLQEGSMGLMKSVEKFKPQAGCRFANT 384
++ +L+ +NLR+V V Y G+ + DLLQ+G++ L+++ EKF+P G RF+
Sbjct: 397 AKNQLVASNLRMVQRVVNMYIRNGLGSEYNAADLLQDGTVALIRAAEKFEPDRGFRFSTY 456
Query: 385 GV 386
+
Sbjct: 457 AM 458
Score = 41.2 bits (95), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 77/176 (43%), Gaps = 43/176 (24%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
R++K +SKL+ + GR PT E A+A +S L N R+ + A L +
Sbjct: 488 RVQKNESKLRKELGRSPTNEELAEACDISVLQL-------NKCRKAMSQATFSLDAEIQN 540
Query: 347 QYQG-----RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH 401
+ R +++D++ E M E K Q+ LM++H
Sbjct: 541 SQKPNVAKMRKDTMYDIVSEK----MDETEYDKS------------------QRLLMKEH 578
Query: 402 -VRNLLTLLNPKERCIVRLRFGIEDGK--------PKSLSEVGNIFGLSKERVRQL 448
+ L L+P E ++ LR+G+ D + P +++E+ + GL ++VR++
Sbjct: 579 LITALKKYLSPHEVDLLMLRYGLMDDRALPRGMSGPLTIAELSKLVGLKPDKVRRI 634
>gi|332686632|ref|YP_004456406.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC
35311]
gi|379727357|ref|YP_005319542.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius DAT561]
gi|332370641|dbj|BAK21597.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius ATCC
35311]
gi|376318260|dbj|BAL62047.1| RNA polymerase sigma factor RpoD [Melissococcus plutonius DAT561]
Length = 369
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 57/202 (28%), Positives = 95/202 (47%), Gaps = 43/202 (21%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA+EE EL +I++
Sbjct: 93 GIKINDPVRMYLKEIGRVQLLTAEEEVELALKIEE------------------------- 127
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 128 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 172
Query: 370 VEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VRNLLTLLNPKERCIVRLRFGIED-G 426
VEKF + G +F+ ++ + + Q +R + ++ + I R ++D G
Sbjct: 173 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 232
Query: 427 KPKSLSEVGNIFGLSKERVRQL 448
+ + E+G L E+VR++
Sbjct: 233 REPTPEEIGAEMDLPTEKVREI 254
Score = 68.2 bits (165), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 50/62 (80%)
Query: 396 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 455
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +
Sbjct: 295 ELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRK 354
Query: 456 LK 457
L+
Sbjct: 355 LR 356
>gi|227549119|ref|ZP_03979168.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum
DSM 44291]
gi|227078816|gb|EEI16779.1| RNA polymerase sigma factor SigB [Corynebacterium lipophiloflavum
DSM 44291]
Length = 331
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 49/129 (37%), Positives = 72/129 (55%), Gaps = 12/129 (9%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A EE EL +I+ L +QF + + +A
Sbjct: 32 DLVRVYLNGIGKTALLDAAEEVELAQRIE---------VGLYAQFLLDDPDTKLTRA--- 79
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 80 KKRDLKILAKQGRRARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 139
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 140 YAKGFKFST 148
Score = 59.7 bits (143), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 46/66 (69%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L +++++ L +E+ ++RLR+G++DG P++L ++G FGLS+ERVRQ+E
Sbjct: 253 AVVSSLRHDDIQDIIGGLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIERE 312
Query: 452 ALYRLK 457
+ +L+
Sbjct: 313 VMAKLR 318
>gi|40353299|gb|AAR84413.1| alternative primary sigma 70 factor [Frankia sp. ORS020607]
Length = 220
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 53/67 (79%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 11 RDLGLLVKDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 70
Query: 377 AGCRFAN 383
G +F+
Sbjct: 71 KGYKFST 77
>gi|111225055|ref|YP_715849.1| alternative primary sigma 70 transcriptional factor [Frankia alni
ACN14a]
gi|111152587|emb|CAJ64329.1| Alternative primary sigma 70 transcriptional factor [Frankia alni
ACN14a]
Length = 373
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 53/67 (79%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 124 RDLGLLVKDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 183
Query: 377 AGCRFAN 383
G +F+
Sbjct: 184 KGYKFST 190
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L LNP+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 301 MQDEIENVLGGLNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 360
Query: 458 Q 458
+
Sbjct: 361 K 361
>gi|441207686|ref|ZP_20973626.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
gi|440627869|gb|ELQ89674.1| RNA polymerase sigma factor [Mycobacterium smegmatis MKD8]
Length = 454
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 50/136 (36%), Positives = 75/136 (55%), Gaps = 23/136 (16%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q L L ++ KL Q R+ ++
Sbjct: 152 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQKLAELAEKGEKLPVQQRRD---MQ 208
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 209 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 255
Query: 368 KSVEKFKPQAGCRFAN 383
++VEKF G +F+
Sbjct: 256 RAVEKFDYTKGYKFST 271
Score = 67.4 bits (163), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 49/61 (80%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L
Sbjct: 381 LLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKL 440
Query: 457 K 457
+
Sbjct: 441 R 441
>gi|25991936|gb|AAN76995.1|AF481769_1 primary sigma 70 transcriptional factor [Frankia sp. ACN14a]
Length = 385
Score = 76.3 bits (186), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 33/67 (49%), Positives = 53/67 (79%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RDL + G++++++L++ANLRLVV VAK+Y GRG++L DL+QEG++GL+++VEKF
Sbjct: 136 RDLGLLVKDGHAAKQQLVSANLRLVVSVAKKYSGRGMTLLDLVQEGNLGLIRAVEKFDYA 195
Query: 377 AGCRFAN 383
G +F+
Sbjct: 196 KGYKFST 202
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 30/61 (49%), Positives = 45/61 (73%)
Query: 398 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 457
M+ + N+L LNP+ER ++RLRFG+ DGK +L+EVGN GL++ER+RQ+E L L+
Sbjct: 313 MQDEIENVLGGLNPREREVMRLRFGLADGKQHTLAEVGNRLGLTRERIRQIERDTLRELR 372
Query: 458 Q 458
+
Sbjct: 373 K 373
>gi|444432030|ref|ZP_21227190.1| RNA polymerase sigma factor SigB [Gordonia soli NBRC 108243]
gi|443887204|dbj|GAC68911.1| RNA polymerase sigma factor SigB [Gordonia soli NBRC 108243]
Length = 340
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 49/149 (32%), Positives = 76/149 (51%), Gaps = 13/149 (8%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T +R A ++ L D +R++L G LL A++E EL QI+
Sbjct: 22 TRGTRPAMTEQDLDAQSPAADLVRVYLNGIGRTALLNAEQEVELAKQIE----------- 70
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
+ + L + RDL + G +R L+ ANLRLVV +AK+Y GRG+
Sbjct: 71 --TGLYAKHVLATKKRLSATKKRDLAQIVREGEHARAHLLEANLRLVVSLAKRYTGRGMP 128
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
L DL+QEG++GL++++EKF G +F+
Sbjct: 129 LLDLIQEGNLGLIRAMEKFDYAKGFKFST 157
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 52/68 (76%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L+ VR++L+ L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 262 AVIAGLLHTDVRSVLSTLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIERE 321
Query: 452 ALYRLKQS 459
+ +L+Q
Sbjct: 322 VMGKLRQG 329
>gi|408532063|emb|CCK30237.1| RNA polymerase principal sigma factor hrdA [Streptomyces davawensis
JCM 4913]
Length = 437
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 364 LLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 423
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 424 RDHAFADQLRGYLD 437
Score = 73.9 bits (180), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/118 (38%), Positives = 68/118 (57%), Gaps = 19/118 (16%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSK---LQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
LLTA EE EL +++ + E++ S L SQ G DL +
Sbjct: 153 LLTAAEEVELARRVEAGLFAEEKLSNTPDLDSQLGL----------------DLDRLVVM 196
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F+
Sbjct: 197 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFST 254
>gi|300312263|ref|YP_003776355.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum
seropedicae SmR1]
gi|300075048|gb|ADJ64447.1| RNA polymerase sigma S (sigma38) factor protein [Herbaspirillum
seropedicae SmR1]
Length = 337
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 75/125 (60%), Gaps = 5/125 (4%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
+R+K+I NLRLVV +AK Y RG++L DL++EG++GLM++++KF+P+ G RF+
Sbjct: 97 ARQKMIEHNLRLVVSIAKHYINRGVALLDLIEEGNLGLMRAIDKFEPERGFRFSTYATWW 156
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKE-RCIVRLRFGIE----DGKPKSLSEVGNIFGLSKE 443
S+++ +M Q L + +E I+R ++ +E DG+ S ++ ++ E
Sbjct: 157 IRQSIERAIMNQARTVRLPVHMVRELNQILRAKYHLEAQQRDGRDASAEDIAHLVDRPVE 216
Query: 444 RVRQL 448
V+ +
Sbjct: 217 EVQDV 221
Score = 55.5 bits (132), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 47/78 (60%)
Query: 387 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 446
E PD + Q M +R L L+ K+R +V RFG+++ P +L ++ + G+++ERVR
Sbjct: 253 EHPDTRAESQEMAVLIREWLKSLSEKQRVVVARRFGLDNDDPSTLEQLASEMGITRERVR 312
Query: 447 QLESRALYRLKQSLGGKA 464
Q++ AL +LK+ L +
Sbjct: 313 QVQQEALIKLKRLLTSRG 330
>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 = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 74/117 (63%), Gaps = 17/117 (14%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ +G
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDE--------VIDLTSEIKNGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F+
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFS 434
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/192 (26%), Positives = 90/192 (46%), Gaps = 33/192 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ I+ + ++ +E +L + GREP E A +G S +K
Sbjct: 460 VHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQ----------------- 502
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
V +VA++ ISL + E L+ G + GVE P + L+
Sbjct: 503 --VKNVARE----PISLETPIGEEEDTLL----------GDLIEDKGVENPSNRTELTLL 546
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 547 QEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRH 606
Query: 459 SLGGKASYGYAD 470
+ Y D
Sbjct: 607 PKRSRKLKDYLD 618
>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 = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 74/117 (63%), Gaps = 17/117 (14%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ +G
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDE--------VIDLTSEIKNGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F+
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFS 434
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/192 (26%), Positives = 90/192 (46%), Gaps = 33/192 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ I+ + ++ +E +L + GREP E A +G S +K
Sbjct: 460 VHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQ----------------- 502
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
V +VA++ ISL + E L+ G + GVE P + L+
Sbjct: 503 --VKNVARE----PISLETPIGEEEDTLL----------GDLIEDKGVENPSNRTELTLL 546
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 547 QEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRH 606
Query: 459 SLGGKASYGYAD 470
+ Y D
Sbjct: 607 PKRSRKLKDYLD 618
>gi|373461058|ref|ZP_09552806.1| sigma-70 family RNA polymerase sigma factor [Prevotella maculosa OT
289]
gi|371954136|gb|EHO71954.1| sigma-70 family RNA polymerase sigma factor [Prevotella maculosa OT
289]
Length = 290
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 58/160 (36%), Positives = 86/160 (53%), Gaps = 19/160 (11%)
Query: 298 QFGREPTL-----IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+ GR P + IE A+ I RD G ++EKL+ ANLR VV VAKQYQ +G
Sbjct: 24 EIGRAPLISIDEEIELAQKIKKGGRD-------GERAKEKLVTANLRFVVSVAKQYQHQG 76
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLT 407
+SL DL+ EG++GL+K+ EKF G +F + V S+ + + Q VR N +
Sbjct: 77 LSLTDLIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVG 136
Query: 408 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
LN R I +F E+ + SL+E+ N + +E++ Q
Sbjct: 137 SLNKINREIN--KFEQENQRKPSLTELANATQIEEEKIDQ 174
Score = 42.4 bits (98), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 47/86 (54%), Gaps = 9/86 (10%)
Query: 389 PDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
D V + M + N+L +L +E I+R +GI K L E+G+ GL++ERVRQ
Sbjct: 209 TDKQVDHESMALELENVLRKVLKDREITIIRECYGI-GCHEKGLEEIGDQLGLTRERVRQ 267
Query: 448 LESRALYRLKQSLGGKASYGYADLLI 473
+ +++ +L+ S GYA +L+
Sbjct: 268 IREKSIAKLRDS-------GYAKILM 286
>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 = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 47/117 (40%), Positives = 74/117 (63%), Gaps = 17/117 (14%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ +G
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDE--------VIDLTSEIKNGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F+
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFS 434
Score = 64.3 bits (155), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 51/192 (26%), Positives = 90/192 (46%), Gaps = 33/192 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ I+ + ++ +E +L + GREP E A +G S +K
Sbjct: 460 VHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSIEKVKQ----------------- 502
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
V +VA++ ISL + E L+ G + GVE P + L+
Sbjct: 503 --VKNVARE----PISLETPIGEEEDTLL----------GDLIEDKGVENPSNRTELTLL 546
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 547 QEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRH 606
Query: 459 SLGGKASYGYAD 470
+ Y D
Sbjct: 607 PKRSRKLKDYLD 618
>gi|383819225|ref|ZP_09974501.1| RNA polymerase sigma factor SigB [Mycobacterium phlei RIVM601174]
gi|383337196|gb|EID15577.1| RNA polymerase sigma factor SigB [Mycobacterium phlei RIVM601174]
Length = 319
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 48/130 (36%), Positives = 76/130 (58%), Gaps = 15/130 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + L +Q L+E K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAADEVELAKRIE---------AGLYAQH-----LLETRKRLGE 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R+L + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRELAEVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFAN 383
G +F+
Sbjct: 127 DYTKGFKFST 136
Score = 70.5 bits (171), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/68 (39%), Positives = 51/68 (75%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V +L+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E
Sbjct: 241 AVISELLHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 300
Query: 452 ALYRLKQS 459
+ +L+
Sbjct: 301 VMAKLRNG 308
>gi|406965492|gb|EKD91117.1| hypothetical protein ACD_30C00043G0003 [uncultured bacterium]
Length = 364
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 50/190 (26%), Positives = 94/190 (49%), Gaps = 34/190 (17%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANL 338
+ ++ + R + + +L + GREPT E A+A+G+ +
Sbjct: 207 VHMVETINRFNRTQRRLMQELGREPTPEEVAEALGIDP-------------------SKA 247
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLM 398
R +V V+++ + D + Q G G++ PD ++L+
Sbjct: 248 REIVKVSQEPTSLATPVGD--------------EDDSQLGDFIEAPGLK-PDEQATRELL 292
Query: 399 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 458
+ H+ +L L+P+E+ +++LRFG+EDGK ++L EVG FG+++ER+RQ+E++A+ +LK
Sbjct: 293 KDHLDEVLNTLSPREKRVLQLRFGLEDGKQRTLEEVGKEFGVTRERIRQIEAKAVRKLKH 352
Query: 459 SLGGKASYGY 468
K Y
Sbjct: 353 PTRAKKLRDY 362
Score = 68.2 bits (165), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 29/55 (52%), Positives = 46/55 (83%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAN 383
++ +LI+ANLRLVV +AK+Y GRG+SL DL++EG++GLM++VEK+ + G +F+
Sbjct: 128 AKHQLISANLRLVVSIAKKYVGRGMSLLDLIEEGNIGLMRAVEKYDWRRGFKFST 182
>gi|83747939|ref|ZP_00944970.1| RpoS [Ralstonia solanacearum UW551]
gi|83725357|gb|EAP72504.1| RpoS [Ralstonia solanacearum UW551]
Length = 381
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 44/128 (34%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P+ G RF+
Sbjct: 140 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATW 199
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L DG+ S+ ++ ++ G +
Sbjct: 200 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTT 259
Query: 443 ERVRQLES 450
E V+ + S
Sbjct: 260 EEVQDVLS 267
Score = 51.6 bits (122), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q +++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 299 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELAAEMGLTRERVRQI 358
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 359 QQEALVKLKRHFASQG 374
>gi|345014897|ref|YP_004817251.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
violaceusniger Tu 4113]
gi|344041246|gb|AEM86971.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
violaceusniger Tu 4113]
Length = 414
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 53/74 (71%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 341 LLREHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 400
Query: 457 KQSLGGKASYGYAD 470
+ GY D
Sbjct: 401 RDHAFADQLRGYLD 414
Score = 70.1 bits (170), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 32/66 (48%), Positives = 48/66 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 166 DLDRLVVLGRVAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYAR 225
Query: 378 GCRFAN 383
G +F+
Sbjct: 226 GYKFST 231
>gi|17545926|ref|NP_519328.1| RNA polymerase sigma factor RpoS [Ralstonia solanacearum GMI1000]
gi|17428221|emb|CAD14909.1| rna polymerase sigma s (sigma-38) factor transcription regulator
protein [Ralstonia solanacearum GMI1000]
Length = 377
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 44/128 (34%), Positives = 74/128 (57%), Gaps = 5/128 (3%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVE 387
++R+ +I NLRLVV +AK Y RG+ L DL++EG++GLM ++EKF P+ G RF+
Sbjct: 136 AARQVMIERNLRLVVSIAKGYLNRGVPLLDLIEEGNLGLMHAIEKFDPERGFRFSTYATW 195
Query: 388 IPDISVQKQLMRQH--VR---NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 442
S+++ +M Q VR +++ LN R L DG+ S+ ++ ++ G +
Sbjct: 196 WIRQSIERAIMNQARTVRLPVHVIRELNQVLRAKRHLEKSGIDGRDASIEDIAHLLGKTT 255
Query: 443 ERVRQLES 450
E V+ + S
Sbjct: 256 EEVQDVLS 263
Score = 51.6 bits (122), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 44/76 (57%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
PD V + + Q +++ L L+ K R +V RFG+ +P +L E+ GL++ERVRQ+
Sbjct: 295 PDQEVAHRELSQLMKSWLARLSDKHRYVVERRFGLNHIEPATLEELAAEMGLTRERVRQI 354
Query: 449 ESRALYRLKQSLGGKA 464
+ AL +LK+ +
Sbjct: 355 QQEALVKLKRHFASQG 370
>gi|282891123|ref|ZP_06299627.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str.
Hall's coccus]
gi|338176440|ref|YP_004653250.1| RNA polymerase sigma factor rpoD [Parachlamydia acanthamoebae UV-7]
gi|281498940|gb|EFB41255.1| hypothetical protein pah_c047o017 [Parachlamydia acanthamoebae str.
Hall's coccus]
gi|336480798|emb|CCB87396.1| RNA polymerase sigma factor rpoD [Parachlamydia acanthamoebae UV-7]
Length = 546
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 55/178 (30%), Positives = 95/178 (53%), Gaps = 28/178 (15%)
Query: 311 AIGLSCRDLKSE-------LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
A G S D K + + ++ +++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 279 AAGRSLEDFKKDVRMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 338
Query: 364 MGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPKERCIVR 418
MGLMK+VEKF+ + G +F+ +V + + Q +R +++ +N R +
Sbjct: 339 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 398
Query: 419 LRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ---SL------GGKASYG 467
L +E G+ S E+ N G++ ERVR+ +Y++ Q SL GG++ +G
Sbjct: 399 LM--METGREPSPEELANELGITAERVRE-----IYKIAQHPISLQAEVGDGGESQFG 449
Score = 65.9 bits (159), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 57/97 (58%)
Query: 376 QAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 435
Q G +TG + P + +++ + +L L +ER ++ RFG+ DGKPK+L EVG
Sbjct: 447 QFGDFLEDTGADSPAEATGYSILKDKMNEVLATLTDRERKVLIQRFGLLDGKPKTLEEVG 506
Query: 436 NIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 472
F +++ER+RQ+E++AL +++ K + DLL
Sbjct: 507 VEFNVTRERIRQIEAKALRKMRHPTRSKQLKAFLDLL 543
>gi|379709850|ref|YP_005265055.1| RNA polymerase sigma factor [Nocardia cyriacigeorgica GUH-2]
gi|374847349|emb|CCF64419.1| RNA polymerase sigma factor [Nocardia cyriacigeorgica GUH-2]
Length = 454
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 44/129 (34%), Positives = 71/129 (55%), Gaps = 9/129 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A+EE EL +I+ + ++ + Q + P +
Sbjct: 152 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFAAEKMREFAEQGEKLPVAVR------- 204
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD + GN ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 205 --RDFNWIIRDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 262
Query: 375 PQAGCRFAN 383
G +F+
Sbjct: 263 YTKGYKFST 271
Score = 67.8 bits (164), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 51/66 (77%)
Query: 392 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 451
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 376 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 435
Query: 452 ALYRLK 457
+ +L+
Sbjct: 436 TMSKLR 441
>gi|365855968|ref|ZP_09395996.1| RNA polymerase sigma factor RpoD [Acetobacteraceae bacterium
AT-5844]
gi|363718536|gb|EHM01872.1| RNA polymerase sigma factor RpoD [Acetobacteraceae bacterium
AT-5844]
Length = 600
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 42/125 (33%), Positives = 74/125 (59%), Gaps = 5/125 (4%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEI 388
++E+L+ ANLRLVVH+AK+Y+ RG+ DL+QEG++GLM++VEKF + G +F
Sbjct: 363 AKEELVQANLRLVVHIAKRYRNRGLMFGDLIQEGNIGLMRAVEKFDWRRGFKFGTYATWW 422
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERC--IVRL--RFGIEDGKPKSLSEVGNIFGLSKER 444
++ + + Q R + ++ E + R RF + G+ + E+ N G+S ++
Sbjct: 423 VRQAITRSIADQS-RTIRVPVHMTETAAKVARTSRRFAQKAGREPTPEELANELGMSADK 481
Query: 445 VRQLE 449
VR ++
Sbjct: 482 VRTVQ 486
Score = 65.1 bits (157), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 46/171 (26%), Positives = 83/171 (48%), Gaps = 33/171 (19%)
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+ + GREPT E A +G+S +++ ++L + L + ++ GR
Sbjct: 457 RFAQKAGREPTPEELANELGMSADKVRTV--------QRLAREPISLEAPIGEEDDGR-- 506
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 413
L DL++ + +P + + +R N+L+ L+P+E
Sbjct: 507 -LGDLIE----------------------DENAVMPFDAAARSSLRDAATNVLSGLSPRE 543
Query: 414 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
I+R+RFGI +L EVG F +++ER+RQ+E++AL +L+QS G+A
Sbjct: 544 ERILRMRFGIGAENEHTLEEVGRTFNVTRERIRQIEAKALKKLQQSRRGRA 594
>gi|219847152|ref|YP_002461585.1| RpoD subfamily RNA polymerase sigma-70 subunit [Chloroflexus
aggregans DSM 9485]
gi|219541411|gb|ACL23149.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Chloroflexus
aggregans DSM 9485]
Length = 398
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 67/229 (29%), Positives = 114/229 (49%), Gaps = 29/229 (12%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+D +RL+L LLTA++E +L I+ E++ + L P E AK
Sbjct: 98 SDSVRLYLREIGQVPLLTAEQEKQLAQMIERGQAAERKLATL------PPDSPEAAK--- 148
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R +K + G+ +R+K+ ANLRLVV +AK+Y+ RG+ L DL+QEGS+GL++++EKF
Sbjct: 149 --LRRIKEQ---GDEARQKMAAANLRLVVSIAKRYRDRGLPLLDLIQEGSLGLLRAIEKF 203
Query: 374 KPQAGCRFANTGVEIPDISVQKQLMRQ--------HVRNLLTLLNPKERCIVRLRFGIED 425
G +F+ ++ + L Q H+ L + R + +
Sbjct: 204 DHTKGYKFSTYATWWIKQALSRALADQSRLVRLPVHLGETLNRIQSARRQLTQ-----SL 258
Query: 426 GKPKSLSEVGNIFGLSKERVRQLESRAL--YRLKQSLGGKASYGYADLL 472
G+ + +E+ N G+S+E++R+L A L +G +A AD +
Sbjct: 259 GREPTDTELANHLGMSEEKLRELRRTAQDPVSLATPVGEEADSTLADFI 307
Score = 68.9 bits (167), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 31/74 (41%), Positives = 50/74 (67%)
Query: 397 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 456
++RQ + L L+ +ER ++ LR+G+ DG+P++L EVG FG+++ERVRQ+E +AL +L
Sbjct: 323 MLRQQIAAALDQLSERERRVLELRYGLADGQPRTLEEVGKAFGVTRERVRQIEVKALRKL 382
Query: 457 KQSLGGKASYGYAD 470
+ GK Y D
Sbjct: 383 RHPRLGKLLKDYLD 396
>gi|345881032|ref|ZP_08832560.1| hypothetical protein HMPREF9431_01224 [Prevotella oulorum F0390]
gi|343920749|gb|EGV31477.1| hypothetical protein HMPREF9431_01224 [Prevotella oulorum F0390]
Length = 290
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 58/155 (37%), Positives = 87/155 (56%), Gaps = 9/155 (5%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ GR P LI + I L+ + +K G ++EKL+ ANLR VV VAKQYQ +G+SL D
Sbjct: 24 EIGRAP-LISIDEEIELAQK-IKKGGREGERAKEKLVTANLRFVVSVAKQYQHQGLSLTD 81
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFANTGVEIPDISVQKQLMRQH--VR---NLLTLLNPK 412
L+ EG++GL+K+ EKF G +F + V S+ + + Q VR N + LN
Sbjct: 82 LIDEGNIGLVKAAEKFDETRGFKFISYAVWWIRQSILQAIAEQSRIVRLPLNQVGSLNKI 141
Query: 413 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 447
R I RF E+ + SL+E+ N + +E++ Q
Sbjct: 142 NREIN--RFEQENQRKPSLTELSNATKIDEEKIDQ 174
Score = 43.1 bits (100), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 40/69 (57%), Gaps = 8/69 (11%)
Query: 405 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 464
L +L +E I+R FGI K L E+G+ GL++ERVRQ+ +++ +L+ S
Sbjct: 226 LRKVLKDREITIIRECFGI-SCHEKGLEEIGDQLGLTRERVRQIREKSIAKLRDS----- 279
Query: 465 SYGYADLLI 473
GYA +L+
Sbjct: 280 --GYAKILM 286
>gi|406980685|gb|EKE02255.1| hypothetical protein ACD_20C00407G0008 [uncultured bacterium]
Length = 364
Score = 75.9 bits (185), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 30/70 (42%), Positives = 57/70 (81%)
Query: 389 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 448
P ++V +L+R+ + +L+ L+P+ER ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+
Sbjct: 282 PVMTVAHELLREDLAEVLSSLSPRERDVLRLRFGMDDGRQRTLEEVGQLFGVTRERIRQI 341
Query: 449 ESRALYRLKQ 458
E++AL +L+
Sbjct: 342 EAKALRKLRH 351
Score = 72.8 bits (177), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 43/130 (33%), Positives = 64/130 (49%), Gaps = 37/130 (28%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L +LLTADEE EL
Sbjct: 88 DDPVRMYLREIGRIQLLTADEEIEL----------------------------------- 112
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R + S G ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++ EKF
Sbjct: 113 --ARKIVSGGKEGQIAKRKLVQANLRLVVSIAKKYVGRGMLFLDLIQEGNLGLIRAAEKF 170
Query: 374 KPQAGCRFAN 383
+ G +F+
Sbjct: 171 DHERGYKFST 180
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
0.313 0.129 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,788,735,815
Number of Sequences: 23463169
Number of extensions: 267274325
Number of successful extensions: 1014397
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 9932
Number of HSP's successfully gapped in prelim test: 730
Number of HSP's that attempted gapping in prelim test: 987363
Number of HSP's gapped (non-prelim): 25274
length of query: 473
length of database: 8,064,228,071
effective HSP length: 146
effective length of query: 327
effective length of database: 8,933,572,693
effective search space: 2921278270611
effective search space used: 2921278270611
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 79 (35.0 bits)